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grep rough audit - static analysis tool
v2.8 written by @Wireghoul
=================================[justanotherhacker.com]===
tnseq-transit-3.2.0/src/pytransit/data/GO_associated_Rvs-3-11-18.txt-160-GO:0046677 response to antibiotic Rv0002 Rv0005 Rv0006 Rv0054 Rv0129c Rv0194 Rv0251c Rv0262c Rv0342 Rv0350 Rv0406c Rv0410c Rv0667 Rv0682 Rv0983 Rv1080c Rv1218c Rv1258c Rv1410c Rv1411c Rv1457c Rv1473 Rv1484 Rv1536 Rv1634 Rv1636 Rv1640c Rv1686c Rv1846c Rv1886c Rv1908c Rv1988 Rv2030c Rv2043c Rv2068c Rv2136c Rv2333c Rv2416c Rv2447c Rv2462c Rv2686c Rv2687c Rv2688c Rv2720 Rv2737c Rv2764c Rv2864c Rv2936 Rv2937 Rv2938 Rv3065 Rv3168 Rv3197A Rv3286c Rv3370c Rv3406 Rv3418c Rv3566c Rv3790 Rv3793 Rv3794 Rv3795 Rv3817 Rv3855 Rv3867 Rv3910
tnseq-transit-3.2.0/src/pytransit/data/GO_associated_Rvs-3-11-18.txt:161:GO:0005737 cytoplasm Rv0001 Rv0002 Rv0003 Rv0005 Rv0006 Rv0009 Rv0020c Rv0022c Rv0041 Rv0070c Rv0099 Rv0113 Rv0114 Rv0139 Rv0142 Rv0153c Rv0190 Rv0211 Rv0282 Rv0289 Rv0294 Rv0319 Rv0326 Rv0337c Rv0350 Rv0351 Rv0352 Rv0357c Rv0384c Rv0408 Rv0409 Rv0410c Rv0414c Rv0415 Rv0417 Rv0436c Rv0438c Rv0440 Rv0446c Rv0462 Rv0469 Rv0470c Rv0478 Rv0482 Rv0500 Rv0503c Rv0510 Rv0520 Rv0524 Rv0533c Rv0560c Rv0564c Rv0602c Rv0620 Rv0684 Rv0685 Rv0733 Rv0761c Rv0764c Rv0780 Rv0787A Rv0788 Rv0802c Rv0803 Rv0805 Rv0809 Rv0821c Rv0844c Rv0848 Rv0858c Rv0884c Rv0886 Rv0896 Rv0903c Rv0946c Rv0948c Rv0949 Rv0967 Rv0981 Rv1001 Rv1003 Rv1005c Rv1007c Rv1010 Rv1014c Rv1017c Rv1018c Rv1020 Rv1023 Rv1027c Rv1028c Rv1077 Rv1079 Rv1086 Rv1092c Rv1093 Rv1098c Rv1099c Rv1106c Rv1107c Rv1108c Rv1112 Rv1131 Rv1151c Rv1201c Rv1222 Rv1232c Rv1253 Rv1292 Rv1296 Rv1299 Rv1301 Rv1314c Rv1315 Rv1316c Rv1317c Rv1321 Rv1336 Rv1344 Rv1377c Rv1381 Rv1384 Rv1389 Rv1392 Rv1420 Rv1422 Rv1436 Rv1437 Rv1438 Rv1445c Rv1448c Rv1465 Rv1485 Rv1498c Rv1515c Rv1536 Rv1537 Rv1538c Rv1547 Rv1562c Rv1568 Rv1570 Rv1594 Rv1595 Rv1596 Rv1601 Rv1602 Rv1603 Rv1605 Rv1606 Rv1612 Rv1629 Rv1631 Rv1633 Rv1638 Rv1640c Rv1641 Rv1649 Rv1650 Rv1652 Rv1653 Rv1654 Rv1655 Rv1656 Rv1657 Rv1658 Rv1659 Rv1689 Rv1694 Rv1695 Rv1701 Rv1709 Rv1710 Rv1712 Rv1745c Rv1781c Rv1794 Rv1798 Rv1821 Rv1837c Rv1846c Rv1848 Rv1849 Rv1850 Rv1851 Rv1852 Rv1897c Rv1909c Rv1988 Rv2027c Rv2031c Rv2043c Rv2067c Rv2109c Rv2110c Rv2121c Rv2122c Rv2139 Rv2145c Rv2147c Rv2150c Rv2152c Rv2155c Rv2157c Rv2158c Rv2165c Rv2166c Rv2202c Rv2213 Rv2217 Rv2218 Rv2220 Rv2222c Rv2225 Rv2230c Rv2231c Rv2244 Rv2245 Rv2246 Rv2249c Rv2258c Rv2276 Rv2299c Rv2334 Rv2335 Rv2357c Rv2359 Rv2364c Rv2367c Rv2368c Rv2372c Rv2373c Rv2388c Rv2392 Rv2420c Rv2423 Rv2427c Rv2428 Rv2436 Rv2438c Rv2439c Rv2440c Rv2444c Rv2445c Rv2447c Rv2448c Rv2453c Rv2458 Rv2460c Rv2461c Rv2462c Rv2466c Rv2477c Rv2511 Rv2523c Rv2524c Rv2534c Rv2538c Rv2539c Rv2552c Rv2554c Rv2555c Rv2572c Rv2573 Rv2580c Rv2584c Rv2603c Rv2612c Rv2614c Rv2622 Rv2669 Rv2675c Rv2677c Rv2678c Rv2703 Rv2711 Rv2713 Rv2725c Rv2726c Rv2733c Rv2736c Rv2737c Rv2744c Rv2752c Rv2753c Rv2764c Rv2773c Rv2783c Rv2838c Rv2839c Rv2841c Rv2842c Rv2845c Rv2852c Rv2879c Rv2880c Rv2882c Rv2883c Rv2889c Rv2894c Rv2899c Rv2902c Rv2906c Rv2907c Rv2914c Rv2916c Rv2921c Rv2922c Rv2925c Rv2943A Rv2944 Rv2965c Rv2973c Rv2976c Rv2981c Rv2982c Rv2992c Rv2995c Rv3010c Rv3024c Rv3038c Rv3056 Rv3062 Rv3080c Rv3100c Rv3105c Rv3106 Rv3120 Rv3132c Rv3133c Rv3197A Rv3211 Rv3219 Rv3227 Rv3228 Rv3240c Rv3241c Rv3246c Rv3247c Rv3248c Rv3260c Rv3282 Rv3296 Rv3301c Rv3302c Rv3322c Rv3336c Rv3341 Rv3366 Rv3370c Rv3392c Rv3398c Rv3406 Rv3410c Rv3411c Rv3416 Rv3417c Rv3418c Rv3419c Rv3422c Rv3427c Rv3436c Rv3462c Rv3580c Rv3597c Rv3598c Rv3600c Rv3601c Rv3602c Rv3609c Rv3624c Rv3625c Rv3628 Rv3638 Rv3648c Rv3649 Rv3659c Rv3681c Rv3684 Rv3699 Rv3702c Rv3708c Rv3709c Rv3716c Rv3731 Rv3737 Rv3765c Rv3804c Rv3834c Rv3838c Rv3849 Rv3862c Rv3866 Rv3868 Rv3871 Rv3875 Rv3879c Rv3884c Rv3889c Rv3913 Rv3919c
tnseq-transit-3.2.0/src/pytransit/data/GO_associated_Rvs-3-11-18.txt-162-GO:0033875 ribonucleoside bisphosphate metabolic process Rv0295c Rv1092c Rv1366 Rv1391 Rv1631 Rv1837c Rv2131c Rv2583c Rv2965c Rv3600c
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tnseq-transit-3.2.0/src/pytransit/data/GO_associated_Rvs-3-11-18.txt-666-GO:0000103 sulfate assimilation Rv1285 Rv1286 Rv1739c Rv2131c Rv2391 Rv2392 Rv2397c Rv2398c Rv2399c Rv2400c
tnseq-transit-3.2.0/src/pytransit/data/GO_associated_Rvs-3-11-18.txt:667:GO:0033655 host cell cytoplasm part Rv2234 Rv2416c Rv2741 Rv3042c Rv3133c Rv3310 Rv3874 Rv3875 Rv3903c
tnseq-transit-3.2.0/src/pytransit/data/GO_associated_Rvs-3-11-18.txt-668-GO:0015077 monovalent inorganic cation transmembrane transporter activity Rv1028A Rv1029 Rv1030 Rv1031 Rv1304 Rv1305 Rv1306 Rv1307 Rv1308 Rv1309 Rv1310 Rv1311 Rv2193 Rv2199c Rv2200c Rv2287 Rv2691 Rv2692 Rv2713 Rv3043c Rv3236c Rv3331
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tnseq-transit-3.2.0/src/pytransit/data/GO_associated_Rvs-3-11-18.txt-879-GO:0017111 nucleoside-triphosphatase activity Rv0001 Rv0005 Rv0006 Rv0058 Rv0073 Rv0092 Rv0103c Rv0107c Rv0120c Rv0194 Rv0370c Rv0425c Rv0434 Rv0613c Rv0629c Rv0630c Rv0631c Rv0655 Rv0684 Rv0685 Rv0730 Rv0820 Rv0861c Rv0908 Rv0933 Rv0949 Rv0969 Rv0986 Rv1020 Rv1028A Rv1029 Rv1030 Rv1031 Rv1112 Rv1165 Rv1218c Rv1238 Rv1253 Rv1267c Rv1272c Rv1273c Rv1281c Rv1286 Rv1297 Rv1304 Rv1305 Rv1307 Rv1308 Rv1309 Rv1310 Rv1311 Rv1329c Rv1341 Rv1348 Rv1349 Rv1402 Rv1458c Rv1463 Rv1469 Rv1473 Rv1479 Rv1496 Rv1620c Rv1621c Rv1638 Rv1667c Rv1668c Rv1687c Rv1747 Rv1819c Rv1821 Rv1852 Rv1859 Rv1992c Rv1997 Rv2038c Rv2060 Rv2092c Rv2101 Rv2115c Rv2150c Rv2184c Rv2326c Rv2397c Rv2398c Rv2399c Rv2400c Rv2404c Rv2426c Rv2440c Rv2457c Rv2477c Rv2564 Rv2592c Rv2593c Rv2688c Rv2725c Rv2737c Rv2832c Rv2839c Rv2850c Rv2916c Rv2936 Rv2973c Rv3000 Rv3041c Rv3102c Rv3164c Rv3194c Rv3198c Rv3201c Rv3202c Rv3211 Rv3228 Rv3240c Rv3270 Rv3296 Rv3585 Rv3596c Rv3610c Rv3649 Rv3663c Rv3679 Rv3680 Rv3692 Rv3743c Rv3758c Rv3764c Rv3781 Rv3868 Rv3918c
tnseq-transit-3.2.0/src/pytransit/data/GO_associated_Rvs-3-11-18.txt:880:GO:0030430 host cell cytoplasm Rv2234 Rv2741 Rv3042c Rv3364c Rv3423.1 Rv3654c Rv3655c Rv3763 Rv3875 Rv3903c
tnseq-transit-3.2.0/src/pytransit/data/GO_associated_Rvs-3-11-18.txt-881-GO:1902652 secondary alcohol metabolic process Rv0766c Rv0778 Rv1129c Rv1130 Rv2216 Rv2266 Rv3121 Rv3397c Rv3409c Rv3504 Rv3505 Rv3515c Rv3518c Rv3526 Rv3537 Rv3543c Rv3544c Rv3545c Rv3546 Rv3561 Rv3567c Rv3568c Rv3570c Rv3571 Rv3573c
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-4945-GO:0044456 synapse part
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:4946:GO:0044451 nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-4947-GO:0044450 microtubule organizing center part
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-6813-GO:0071628 intrinsic component of fungal-type vacuolar membrane
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:6814:GO:0071629 cytoplasm protein quality control by the ubiquitin-proteasome system
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-6815-GO:0071622 regulation of granulocyte chemotaxis
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-7482-GO:0097314 apoptosome assembly
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:7483:GO:0007317 regulation of pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:7484:GO:0007316 pole plasm RNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:7485:GO:0007315 pole plasm assembly
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-7486-GO:0007314 oocyte anterior/posterior axis specification
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-7491-GO:0007319 negative regulation of oskar mRNA translation
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:7492:GO:0007318 pole plasm protein localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-7493-GO:1901700 response to oxygen-containing compound
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-12649-GO:0019098 reproductive behavior
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:12650:GO:0019097 pole plasm mitochondrial srRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:12651:GO:0019096 pole plasm mitochondrial lrRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:12652:GO:0019095 pole plasm mitochondrial rRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:12653:GO:0019094 pole plasm mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-12654-GO:0019093 mitochondrial RNA localization
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-21978-GO:0097248 maintenance of protein location in cell cortex of cell tip
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:21979:GO:0033655 host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-21980-GO:0097249 mitochondrial respiratory chain supercomplex
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-23306-GO:0039711 cytoplasmic helical capsid assembly
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:23307:GO:0039716 viroplasm viral factory
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-23308-GO:0039717 spherule viral factory
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-26512-GO:0045851 pH reduction
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:26513:GO:0045856 positive regulation of pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-26514-GO:0045857 negative regulation of molecular function, epigenetic
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-26515-GO:0045854 positive regulation of bicoid mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:26516:GO:0045855 negative regulation of pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-26517-GO:0045858 positive regulation of molecular function, epigenetic
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-29352-GO:0045450 bicoid mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:29353:GO:0045451 pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-29354-GO:0070070 proton-transporting V-type ATPase complex assembly
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-42175-GO:0046597 negative regulation of viral entry into host cell
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:42176:GO:0046594 maintenance of pole plasm mRNA location
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:42177:GO:0046595 establishment of pole plasm mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-42178-GO:0046592 polyamine oxidase activity
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tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-45430-GO:0007029 endoplasmic reticulum organization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat:45431:GO:0007028 cytoplasm organization
tnseq-transit-3.2.0/src/pytransit/data/GO_term_names.dat-45432-GO:1901432 negative regulation of response to cycloalkane
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-604-synonym: "protein docking during protein import into nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:605:synonym: "protein docking during protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-606-synonym: "protein docking during protein-nucleus import" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:607:synonym: "protein transport from cytoplasm to nucleus, docking" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-608-synonym: "protein-nucleus import, docking" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-618-synonym: "protein translocation during protein import into nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:619:synonym: "protein translocation during protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-620-synonym: "protein translocation during protein-nucleus import" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:621:synonym: "protein transport from cytoplasm to nucleus, translocation" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-622-synonym: "protein-nucleus import, translocation" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-632-synonym: "protein substrate release during protein import into nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:633:synonym: "protein substrate release during protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-634-synonym: "protein substrate release during protein-nucleus import" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:635:synonym: "protein transport from cytoplasm to nucleus, substrate release" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-636-synonym: "protein-nucleus import, substrate release" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-1022-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:1023:def: "The cell cycle phase which follows anaphase during M phase of mitosis and during which the chromosomes arrive at the poles of the cell and the division of the cytoplasm starts." [GOC:mtg_cell_cycle]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-1024-comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-1345-synonym: "HDAC complex" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:1346:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-1347-is_a: GO:1902494 ! catalytic complex
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-1404-is_a: GO:0031248 ! protein acetyltransferase complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:1405:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-1406-
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-2735-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:2736:def: "OBSOLETE. A chromosome found in the cytoplasm during mitosis." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-2737-comment: This term was made obsolete because it is based on a temporal division of the cell cycle.
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-2755-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:2756:def: "OBSOLETE. A chromosome found in the cytoplasm during interphase." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-2757-comment: This term was made obsolete because it is based on a temporal division of the cell cycle.
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-3467-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:3468:def: "A cell cycle process that results in the division of the cytoplasm of a cell after mitosis, resulting in the separation of the original cell into two daughter cells." [GOC:mtg_cell_cycle]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-3469-subset: goslim_pombe
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-4032-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:4033:def: "The lipid bilayer surrounding a vacuole, the shape of which correlates with cell cycle phase. The membrane separates its contents from the cytoplasm of the cell. An example of this structure is found in Saccharomyces cerevisiae." [GOC:krc, GOC:mtg_sensu]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-4034-synonym: "fungal-type vacuolar membrane" RELATED []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-4051-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:4052:def: "A specialized vacuole of eukaryotic cells, especially Protozoa, that fills with water from the cytoplasm and then discharges this externally by the opening of contractile vacuole pores. Its function is probably osmoregulatory." [GOC:jl, PMID:10503189]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-4053-xref: Wikipedia:Contractile_vacuole
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-4885-synonym: "DNA-directed RNA polymerase IVa complex" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:4886:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-4887-is_a: GO:0055029 ! nuclear DNA-directed RNA polymerase complex
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-5073-is_a: GO:0000439 ! core TFIIH complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:5074:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-5075-relationship: part_of GO:0005675 ! holo TFIIH complex
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-6771-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:6772:def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:mtg_muscle, GOC:tb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-6773-synonym: "cell fusion" BROAD []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-6780-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:6781:def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by one or more rounds of nuclear division without cytokinesis." [GOC:mah, GOC:tb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-6782-synonym: "syncytium formation by mitosis without cell division" RELATED [GOC:mah]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-6977-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:6978:def: "A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA in the cytoplasm into higher order structures." [GOC:elh]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-6979-is_a: GO:0000786 ! nucleosome
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-7585-alt_id: GO:0033205
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:7586:def: "The division of the cytoplasm and the plasma membrane of a cell and its partitioning into two daughter cells." [GOC:mtg_cell_cycle]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-7587-comment: Note that this term should not be used for direct annotation. When annotating eukaryotic species, mitotic or meiotic cytokinesis should always be specified for manual annotation and for prokaryotic species use 'FtsZ-dependent cytokinesis ; GO:0043093' or Cdv-dependent cytokinesis ; GO:0061639. Also, note that cytokinesis does not necessarily result in physical separation and detachment of the two daughter cells from each other.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-7615-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:7616:def: "The process of dividing the cytoplasm of a parent cell where a structure forms in the cytoplasm and grows until reaching the plasma membrane, thereby completely separating the cytoplasms of adjacent progeny cells. An example of this is found in Arabidopsis thaliana." [GOC:clt]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-7617-is_a: GO:1902410 ! mitotic cytokinetic process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-7818-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:7819:def: "A focus in the cytoplasm where mRNAs may become inactivated by decapping or some other mechanism. Protein and RNA localized to these foci are involved in mRNA degradation, nonsense-mediated mRNA decay (NMD), translational repression, and RNA-mediated gene silencing." [GOC:clt, PMID:12730603]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-7820-synonym: "cytoplasmic foci" RELATED []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-7836-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:7837:def: "A septum or cross wall which does not entirely span the space between two portions of cell wall and may contain a specialized central pore structure. A porous septum allows the movement of organelles and/or cytoplasm between compartments." [GOC:clt]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-7838-synonym: "porous septum" BROAD []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-7844-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:7845:def: "A cell septum which forms as part of the division site and functions in the compartmentalization of a cell into two daughter cells at division. A division septum spans a cell and does not allow exchange of organelles or cytoplasm between compartments." [GOC:clt, GOC:vw]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-7846-synonym: "complete septum" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-11181-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:11182:def: "Any process in which the size of the nucleus with respect to the cytoplasm modulates the frequency, rate or extent of cell growth, the irreversible increase in size of a cell over time." [GOC:dph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-11183-synonym: "detection of nuclear:cytoplasmic ratio to regulate cell growth" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-13188-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:13189:def: "Any apoptotic process in a neutrophil, any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes." [CL:0000775, GOC:add, GOC:mtg_apoptosis, PMID:12752675, PMID:12960266]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-13190-synonym: "apoptosis of neutrophils" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-16501-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:16502:def: "A punctate, filamentous structure composed of Bcl10 that appears in the cytoplasm of T-cells shortly after T-cell receptor stimulation. Polkadots stands for Punctate Oligomeric Killing and Activating DOmains Transducing Signals." [PMID:14724296, PMID:16495340]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-16503-comment: Note that polkadots also contains some amount of MALT1. Interaction with MALT1 is required for formation of the polkadots.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-61344-namespace: molecular_function
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:61345:def: "Activity of any of the molecules that transmit the signal from a TGF-beta receptor through the cytoplasm to the nucleus." [GOC:hjd]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-61346-comment: Note that this term and its children are useful for annotating proteins of the SMAD family.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-66111-namespace: molecular_function
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:66112:def: "Interacting selectively and non-covalently with tropomyosin, a protein associated with actin filaments both in cytoplasm and, in association with troponin, in the thin filament of striated muscle." [GOC:curators, ISBN:0815316194]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-66113-is_a: GO:0008092 ! cytoskeletal protein binding
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67092-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:67093:def: "The prospore membrane is a double-membraned structure that extends from the cytoplasmic face of the spindle pole bodies to encompass the spindle pole bodies and the four nuclear lobes that are formed during meiosis. It helps isolate the meiotic nuclei from the cytoplasm during spore formation and serves as a foundation for the formation of the spore walls. An example of this component is found in Schizosaccharomyces pombe." [ISBN:0879693649]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67094-subset: gosubset_prok
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67386-is_a: GO:0036387 ! pre-replicative complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:67387:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67388-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67465-synonym: "RNAP II complex" BROAD []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:67466:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67467-is_a: GO:0055029 ! nuclear DNA-directed RNA polymerase complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67475-synonym: "DNA-directed RNA polymerase III activity" RELATED []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:67476:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67477-is_a: GO:0055029 ! nuclear DNA-directed RNA polymerase complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67501-def: "A complex composed of TATA binding protein (TBP) and TBP associated factors (TAFs); the total mass is typically about 800 kDa. Most of the TAFs are conserved across species. In TATA-containing promoters for RNA polymerase II (Pol II), TFIID is believed to recognize at least two distinct elements, the TATA element and a downstream promoter element. TFIID is also involved in recognition of TATA-less Pol II promoters. Binding of TFIID to DNA is necessary but not sufficient for transcription initiation from most RNA polymerase II promoters." [GOC:krc, GOC:mah, ISBN:0471953393, ISBN:0879695501]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:67502:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67503-is_a: GO:0090575 ! RNA polymerase II transcription factor complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67532-def: "A component of the transcription machinery of RNA Polymerase II. In humans, TFIIA is a heterotrimer composed of an alpha (P35), beta (P19) and gamma subunits (P12)." [GOC:jl, PMID:17560669]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:67533:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67534-is_a: GO:0090575 ! RNA polymerase II transcription factor complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67541-def: "A transcription factor which in humans consists of a complex of two alpha and two beta chains. Recruits TFIIH to the initiation complex and helps activate both RNA polymerase II and TFIIH." [GOC:jl, PMID:16547462]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:67542:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67543-is_a: GO:0090575 ! RNA polymerase II transcription factor complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67550-def: "A general transcription initiation factor which in humans consists of a heterodimer of an alpha and a beta subunit. Helps recruit RNA polymerase II to the initiation complex and promotes translation elongation." [GOC:jl, PMID:7597077]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:67551:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67552-is_a: GO:0090575 ! RNA polymerase II transcription factor complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67560-is_a: GO:0032806 ! carboxy-terminal domain protein kinase complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:67561:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67562-is_a: GO:0090575 ! RNA polymerase II transcription factor complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67979-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:67980:def: "Structures of variable diameter visible in the nucleoplasm by electron microscopy, mainly observed near the border of condensed chromatin. The fibrils are enriched in RNA, and are believed to be sites of pre-mRNA splicing and polyadenylylation representing the in situ form of nascent transcripts." [PMID:14731598]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-67981-is_a: GO:0044454 ! nuclear chromosome part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-68012-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:68013:def: "A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome." [ISBN:0198506732]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-68014-subset: goslim_aspergillus
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-68105-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:68106:def: "A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration." [GOC:giardia, ISBN:0198506732]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-68107-comment: Some anaerobic or microaerophilic organisms (e.g. Entamoeba histolytica, Giardia intestinalis and several Microsporidia species) do not have mitochondria, and contain mitochondrion-related organelles (MROs) instead, called mitosomes or hydrogenosomes, very likely derived from mitochondria. To annotate gene products located in these mitochondrial relics in species such as Entamoeba histolytica, Giardia intestinalis or others, please use GO:0032047 'mitosome' or GO:0042566 'hydrogenosome'. (See PMID:24316280 for a list of species currently known to contain mitochondrion-related organelles.)
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-68471-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:68472:def: "The lipid bilayer surrounding the vacuole and separating its contents from the cytoplasm of the cell." [GOC:ai]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-68473-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-68568-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:68569:def: "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached)." [ISBN:0198506732]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-68570-subset: goslim_agr
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69054-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:69055:def: "The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes." [GOC:hjd, GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69056-subset: goslim_agr
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69226-def: "A conserved heterodimeric protein complex that binds to the 5' terminal cap structure m7G(5')ppp(5')N of nascent eukaryotic RNA polymerase II transcripts such as pre-mRNA and U snRNA. The consists of proteins known as CBP20 and CBP80, binds to cap structures in the nucleus, and is involved in pre-mRNA splicing, 3'-end formation, and RNA nuclear export." [PMID:16043498]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:69227:comment: Note that this complex can be found in the cytoplasm as well as the nucleus.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69228-synonym: "CBC" RELATED []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69261-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:69262:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69263-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69489-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:69490:def: "Any microtubule in the cytoplasm of a cell." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69491-synonym: "non-spindle-associated astral microtubule" NARROW []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69498-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:69499:def: "A cytoskeletal structure that forms a distinct elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space. Intermediate filaments may be divided into five chemically distinct classes: Type I, acidic keratins; Type II, basic keratins; Type III, including desmin, vimentin and others; Type IV, neurofilaments and related filaments; and Type V, lamins." [http://www.cytochemistry.net/Cell-biology/intermediate_filaments.htm, ISBN:0198506732]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69500-synonym: "intermediate filament associated protein" RELATED []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69712-alt_id: GO:0016599
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:69713:def: "A membrane raft that forms small pit, depression, or invagination that communicates with the outside of a cell and extends inward, indenting the cytoplasm and the cell membrane. Examples include flask-shaped invaginations of the plasma membrane in adipocytes associated with caveolin proteins, and minute pits or incuppings of the cell membrane formed during pinocytosis. Caveolae may be pinched off to form free vesicles within the cytoplasm." [GOC:mah, ISBN:0721662544, PMID:16645198]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-69714-synonym: "caveolae" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-76525-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:76526:def: "The import of RNA from the cytoplasm to the nucleus." [GOC:ma]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-76527-synonym: "RNA import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:76528:synonym: "RNA transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-76529-synonym: "RNA-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79342-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:79343:def: "The directed movement of a protein from the cytoplasm to the nucleus." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79344-synonym: "establishment of protein localization to nucleus" EXACT [GOC:mah]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79346-synonym: "protein nucleus import" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:79347:synonym: "protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79348-is_a: GO:0006886 ! intracellular protein transport
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79357-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:79358:def: "The directed movement of a protein bearing a nuclear localization signal (NLS) from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:ai]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79359-synonym: "NLS-bearing substrate import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79360-synonym: "NLS-bearing substrate import into nucleus" EXACT [GOC:bf, GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:79361:synonym: "NLS-bearing substrate transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79362-synonym: "NLS-bearing substrate-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79368-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:79369:def: "The directed movement of a small nuclear ribonucleoprotein from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:ai]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79370-synonym: "snRNP protein import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:79371:synonym: "snRNP protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79372-synonym: "snRNP protein-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79378-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:79379:def: "The directed movement of a heterogeneous nuclear ribonucleoprotein from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79380-synonym: "mRNA-binding (hnRNP) protein import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:79381:synonym: "mRNA-binding (hnRNP) protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79382-synonym: "mRNA-binding (hnRNP) protein-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79388-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:79389:def: "The directed movement of a ribosomal protein from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:ai]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79390-synonym: "ribosomal protein import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:79391:synonym: "ribosomal protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-79392-synonym: "ribosomal protein-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-84049-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:84050:def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane. Syncytia are normally derived from single cells that fuse or fail to complete cell division." [ISBN:0198506732]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-84051-subset: goslim_pir
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-84968-id: GO:0007028
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:84969:name: cytoplasm organization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-84970-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:84971:def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the cytoplasm. The cytoplasm is all of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [GOC:curators, GOC:dph, GOC:jl, GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-84972-subset: goslim_pir
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-84973-subset: gosubset_prok
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:84974:synonym: "cytoplasm organisation" EXACT [GOC:curators]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:84975:synonym: "cytoplasm organization and biogenesis" RELATED [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-84976-is_a: GO:0016043 ! cellular component organization
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-85796-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:85797:def: "A cell cycle process that results in the division of the cytoplasm of a cell after meiosis I, resulting in the separation of the original cell into two daughter cells." [GOC:mtg_cell_cycle]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-85798-synonym: "cytokinesis after meiosis I" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-85805-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:85806:def: "A cell cycle process that results in the division of the cytoplasm of a cell after meiosis II, resulting in the separation of the original cell into two daughter cells." [GOC:mtg_cell_cycle]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-85807-synonym: "cytokinesis after meiosis II" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-85814-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:85815:def: "A cell cycle process that occurs as part of the male meiotic cell cycle and results in the division of the cytoplasm of a cell to produce two daughter cells." [GOC:ai]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-85816-synonym: "cytokinesis after male meiosis" EXACT [GOC:dph, GOC:tb]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-86033-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:86034:def: "The cell cycle phase which follows anaphase I of meiosis and during which the chromosomes arrive at the poles of the cell and the division of the cytoplasm starts." [GOC:mtg_cell_cycle]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-86035-comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-86083-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:86084:def: "The cell cycle phase which follows anaphase II of meiosis and during which the chromosomes arrive at the poles of the cell and the division of the cytoplasm starts." [GOC:mtg_cell_cycle]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-86085-comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-86572-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:86573:def: "The directed movement of a SMAD proteins from the cytoplasm into the nucleus. Pathway-restricted SMAD proteins and common-partner SMAD proteins are involved in the transforming growth factor beta receptor signaling pathways." [GOC:dph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-86574-comment: Note that 'translocation' is sometimes used in the literature to refer to the entire process of protein import into the nucleus, but in GO refers specifically to the step in which a cargo-carrier protein complex moves through the nuclear pore complex.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-87964-xref: Wikipedia:Vitellogenesis
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:87965:is_a: GO:0007028 ! cytoplasm organization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-87966-is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88174-id: GO:0007315
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88175:name: pole plasm assembly
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88176-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88177-alt_id: GO:0048113
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88178:def: "Establishment of the specialized cytoplasm found at the poles of the egg. An example of this is found in Drosophila melanogaster." [GOC:mtg_sensu]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88179:is_a: GO:0007028 ! cytoplasm organization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88180-is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88185-id: GO:0007316
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88186:name: pole plasm RNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88187-namespace: biological_process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88189-def: "Any process in which RNA is transported to, or maintained in, the oocyte pole plasm. An example of this is found in Drosophila melanogaster." [GOC:ai]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88190:synonym: "establishment and maintenance of pole plasm RNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88191:synonym: "oocyte pole plasm RNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88192:synonym: "pole plasm RNA localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88193-is_a: GO:0006403 ! RNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88194-is_a: GO:0022414 ! reproductive process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88195:relationship: part_of GO:0007315 ! pole plasm assembly
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88196-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88198-id: GO:0007317
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88199:name: regulation of pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88200-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88201-def: "Any process that modulates the frequency, rate or extent of the process in which oskar mRNA is transported to, or maintained in, the oocyte pole plasm." [GOC:hb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88202:synonym: "regulation of oocyte pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88203:synonym: "regulation of pole plasm oskar mRNA localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88204-is_a: GO:0044087 ! regulation of cellular component biogenesis
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88209-is_a: GO:1904580 ! regulation of intracellular mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88210:relationship: regulates GO:0045451 ! pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88211-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88213-id: GO:0007318
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88214:name: pole plasm protein localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88215-namespace: biological_process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88217-def: "Any process in which a protein is transported to, or maintained in, the oocyte pole plasm. An example of this is found in Drosophila melanogaster." [GOC:ai]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88218:synonym: "establishment and maintenance of pole plasm protein localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88219:synonym: "oocyte pole plasm protein localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88220:synonym: "pole plasm protein localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88221-is_a: GO:0008104 ! protein localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88222-is_a: GO:0022414 ! reproductive process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:88223:relationship: part_of GO:0007315 ! pole plasm assembly
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-88224-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-89825-alt_id: GO:0048637
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:89826:def: "The developmental sequence of events leading to the formation of adult skeletal muscle tissue. The main events are: the fusion of myoblasts to form myotubes that increase in size by further fusion to them of myoblasts, the formation of myofibrils within their cytoplasm and the establishment of functional neuromuscular junctions with motor neurons. At this stage they can be regarded as mature muscle fibers." [GOC:mtg_muscle]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-89827-synonym: "myogenesis" RELATED []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-91213-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:91214:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-91215-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-108729-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:108730:def: "OBSOLETE. In Gram-negative bacteria the membrane that separates the cytoplasm from the murein sacculus." [GOC:ma]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-108731-comment: This term was made obsolete because it was defined inaccurately.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-110995-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:110996:def: "A fine cytoplasmic channel, found in all higher plants, that connects the cytoplasm of one cell to that of an adjacent cell." [ISBN:0198506732]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-110997-synonym: "plasmodesmata" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-111041-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:111042:def: "Endoplasmic reticulum found in plasmodesmata, junctions connecting the cytoplasm of adjacent plant cells." [GOC:ai]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-111043-synonym: "plasmodesmatal ER" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-111255-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:111256:def: "Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid." [GOC:jl, ISBN:0198547684]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-111257-subset: goslim_chembl
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-111518-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:111519:def: "The union of gametes of opposite sexes during the process of sexual reproduction to form a zygote. It involves the fusion of the gametic nuclei (karyogamy) and cytoplasm (plasmogamy)." [GOC:tb, ISBN:0198506732]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-111520-synonym: "syngamy" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-112384-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:112385:def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a plasmodesma, a fine cytoplasmic channel, found in all higher plants, that connects the cytoplasm of one cell to that of an adjacent cell." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-112386-synonym: "plasmodesma organisation" EXACT [GOC:curators]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-112892-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:112893:def: "The lipid bilayer surrounding a vacuole that retains the same shape regardless of cell cycle phase. The membrane separates its contents from the cytoplasm of the cell. An example of this component is found in Arabidopsis thaliana." [GOC:mtg_sensu, ISBN:0471245208]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-112894-synonym: "membrane of vacuole with cell cycle-independent morphology" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-114920-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:114921:def: "The leaflet of the plasma membrane that faces away from the cytoplasm and any proteins embedded or anchored in it or attached to its surface." [GOC:dos, GOC:tb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-114922-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-114933-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:114934:def: "The leaflet the plasma membrane that faces the cytoplasm and any proteins embedded or anchored in it or attached to its surface." [GOC:dos, GOC:tb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-114935-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-118664-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:118665:def: "A lytic vacuole that is maintained at acidic pH and has different tonoplast composition compared to the central vacuole. Found during leaf senescence and develops in the peripheral cytoplasm of cells that contain chloroplast." [PMID:15743448]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-118666-synonym: "senescence associated vacuole" EXACT [GOC:curators]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-119227-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:119228:def: "The separation of the multi-nucleate endosperm into individual cells. In many plant species, the endosperm that nurtures the embryo in the seed initially develops as a syncytium. This syncytial phase ends with simultaneous partitioning of the multi-nucleate cytoplasm into individual cells, a process referred to as cellularization." [PMID:12421698]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-119229-synonym: "cellularization of endosperm" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-120573-alt_id: GO:1902587
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:120574:def: "The movement of substances between cells via plasmodesmata. Plasmodesmata is a fine cytoplasmic channel, found in all higher plants, that connects the cytoplasm of one cell to that of an adjacent cell." [PMID:17601829]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-120575-synonym: "plasmodesma-mediated cell-to-cell transport" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-120783-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:120784:def: "Any process that modulates the rate of the directed movement of calcium ions into the cytosol of a cell. The cytosol is that part of the cytoplasm that does not contain membranous or particulate subcellular components." [GOC:dph, GOC:tb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-120785-is_a: GO:0050794 ! regulation of cellular process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-120794-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:120795:def: "Any process that decreases the rate of the directed movement of calcium ions into the cytosol of a cell. The cytosol is that part of the cytoplasm that does not contain membranous or particulate subcellular components." [GOC:dph, GOC:tb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-120796-is_a: GO:0010522 ! regulation of calcium ion transport into cytosol
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-120804-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:120805:def: "Any process that increases the rate of the directed movement of calcium ions into the cytosol of a cell. The cytosol is that part of the cytoplasm that does not contain membranous or particulate subcellular components." [GOC:dph, GOC:tb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-120806-is_a: GO:0007204 ! positive regulation of cytosolic calcium ion concentration
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-125247-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:125248:def: "The process in which a relatively unspecialized cell acquires specialized features of a sclerenchyma cell. A sclerenchyma cell is a plant cell with thick lignified walls, normally dead at maturity and specialized for structural strength. Includes fiber cells, that are greatly elongated; and sclereids, that are more isodiametric. Intermediate types exist. Cells may or may not be devoid of protoplasm at maturity. Cell form and size are variable." [CL:0000276, GOC:ef, GOC:jid, PO:0000077]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-125249-is_a: GO:0030154 ! cell differentiation
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-130981-namespace: molecular_function
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:130982:def: "OBSOLETE. Catalysis of the transport of electrolytes and other small molecules across a cell membrane. They are synthesized by one cell and secreted for insertion into the membrane of another cell where they form transmembrane pores. They may exert their toxic effects by allowing the free flow of electrolytes and other small molecules across the membrane, or they may allow entry into the target cell cytoplasm of a toxin protein that ultimately kills the cell." [PMID:10839820]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-130983-comment: This term was made obsolete because it represents a class of gene products.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-133057-namespace: molecular_function
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:133058:def: "OBSOLETE. Plasmid-encoded bacteriocins which are produced by enteric bacteria. Exert a lethal effect on other bacteria including E. coli strains that lack the Col plasmid. Bind to a cell surface receptor and are transported into the periplasm via an energy-dependent process involving a TonB- or TolA-dependent hetero-oligomeric protein complex. Some colicins kill their target cell by inserting into the cytoplasmic membrane where they form voltage-sensitive (trans-negative) channels that depolarize and deenergize the cell, and thereby kill it." [TC:1.C.1.-.-]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-133059-comment: This term was made obsolete because it represents a class of gene products.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-133126-namespace: molecular_function
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:133127:def: "Transports a passenger protein from the periplasm to the external milieu; the passenger protein and the porin are the N- and C-terminal regions of the same protein, respectively." [GOC:mtg_transport, ISBN:0815340729, TC:1.B.12.-.-]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-133128-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-133134-namespace: molecular_function
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:133135:def: "Enables the transfer of adhesin from the periplasm to the external milieu; the adhesin and the porin are the N- and C-terminal regions of the same protein, respectively." [GOC:mtg_transport, ISBN:0815340729]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-133136-is_a: GO:0015474 ! autotransporter activity
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-133141-namespace: molecular_function
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:133142:def: "Enables the transfer of hemaglutinin from the periplasm to the external milieu; the hemaglutinin and the porin are the N- and C-terminal regions of the same protein, respectively." [GOC:mtg_transport, ISBN:0815340729]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-133143-is_a: GO:0015474 ! autotransporter activity
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-133148-namespace: molecular_function
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:133149:def: "OBSOLETE. A porin of the bacterial outer membrane that forms transmembrane pores and transports relatively large molecules from the external milieu to the periplasm in an energized process. Energizing of transport across the outer membrane requires a heterotrimeric complex of proteins, the TonB-ExbB-ExbD complex, or in some cases, the TolA-TolQ-TolR complex. Energizing requires proton motive force across the cytoplasmic membrane." [GOC:mtg_transport, ISBN:0815340729, TC:1.B.13.-.-]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-133150-comment: This term was made obsolete because it combines two functions that are not linked.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-140515-def: "The major inducible pathway for the general turnover of cytoplasmic constituents in eukaryotic cells, it is also responsible for the degradation of active cytoplasmic enzymes and organelles during nutrient starvation. Macroautophagy involves the formation of double-membrane-bounded autophagosomes which enclose the cytoplasmic constituent targeted for degradation in a membrane-bounded structure. Autophagosomes then fuse with a lysosome (or vacuole) releasing single-membrane-bounded autophagic bodies that are then degraded within the lysosome (or vacuole). Some types of macroautophagy, e.g. pexophagy, mitophagy, involve selective targeting of the targets to be degraded." [PMID:11099404, PMID:12914914, PMID:15798367, PMID:16973210, PMID:20159618, PMID:9412464]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:140516:comment: Targeted macroautophagy sometimes targets regions of cytoplasm containing non-self, such as virus particles or components (e.g. see PMID:20159618). As this is essentially the same process as macroautophagy that encloses and digests only self, the term autophagy is still used despite the enclosure of some non-self (non-auto) entities.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-140517-synonym: "autophagy" BROAD []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-143345-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:143346:def: "The process in which the size of the nucleus with respect to its cytoplasm is sensed by a cell." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-143347-synonym: "interpretation of nuclear:cytoplasmic ratio" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-143888-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:143889:def: "The cytoplasm of a muscle cell; includes the sarcoplasmic reticulum." [ISBN:0198547684]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-143890-xref: Wikipedia:Sarcoplasm
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-143897-alt_id: GO:0008221
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:143898:def: "A fine reticular network of membrane-limited elements that pervades the sarcoplasm of a muscle cell; continuous over large portions of the cell and with the nuclear envelope; that part of the endoplasmic reticulum specialized for calcium release, uptake and storage." [GOC:mtg_muscle, ISBN:0124325653, ISBN:0198547684]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:143899:comment: See also the cellular component terms 'sarcoplasm ; GO:0016528', 'nuclear envelope ; GO:0005635' and 'endoplasmic reticulum ; GO:0005783'.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-143900-xref: Wikipedia:Endoplasmic_reticulum#Sarcoplasmic_reticulum
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-144481-subset: goslim_pir
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:144482:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-144483-is_a: GO:0055029 ! nuclear DNA-directed RNA polymerase complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-144496-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:144497:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-144498-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-144607-xref: NIF_Subcellular:sao505137457
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:144608:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-144609-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-161721-alt_id: GO:0075601
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:161722:def: "A process by which a virus establishes a latent state within its host, either as an integrated provirus within the host genome or as an episome, where viral genome remains in the cytoplasm or nucleus as distinct objects." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-161723-subset: virus_checked
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162279-id: GO:0019094
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162280:name: pole plasm mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162281-namespace: biological_process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162284-synonym: "establishment and maintenance of mRNA localization in pole plasm" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162285:synonym: "establishment and maintenance of pole plasm mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162286:synonym: "oocyte pole plasm mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162287-synonym: "pole granule RNA localization" BROAD []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162288:synonym: "pole plasm mRNA localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162289:is_a: GO:0007316 ! pole plasm RNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162290-is_a: GO:0060811 ! intracellular mRNA localization involved in anterior/posterior axis specification
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162293-id: GO:0019095
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162294:name: pole plasm mitochondrial rRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162295-namespace: biological_process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162298-synonym: "establishment and maintenance of mitochondrial rRNA localization in pole plasm" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162299:synonym: "oocyte pole plasm mitochondrial rRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162300:synonym: "pole plasm mitochondrial rRNA localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162301:is_a: GO:0007316 ! pole plasm RNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162302-is_a: GO:0019093 ! mitochondrial RNA localization
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162305-id: GO:0019096
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162306:name: pole plasm mitochondrial lrRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162307-namespace: biological_process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162310-synonym: "establishment and maintenance of mitochondrial lrRNA localization in pole plasm" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162311:synonym: "oocyte pole plasm mitochondrial lrRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162312:synonym: "pole plasm mitochondrial lrRNA localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162313:is_a: GO:0019095 ! pole plasm mitochondrial rRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162314-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162316-id: GO:0019097
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162317:name: pole plasm mitochondrial srRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162318-namespace: biological_process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162321-synonym: "establishment and maintenance of mitochondrial localization in pole plasm" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162322:synonym: "oocyte pole plasm mitochondrial srRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162323:synonym: "pole plasm mitochondrial srRNA localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:162324:is_a: GO:0019095 ! pole plasm mitochondrial rRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-162325-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-163760-namespace: molecular_function
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:163761:def: "Interacting selectively and non-covalently with an intermediate filament, a distinct elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of higher eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space." [ISBN:0198506732]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-163762-is_a: GO:0044877 ! protein-containing complex binding
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-172651-synonym: "SCV" EXACT [PMID:10449405, PMID:15121880]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:172652:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-172653-is_a: GO:0065010 ! extracellular membrane-bounded organelle
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-172880-def: "Protrusion that develops in the plasma membrane of a parasitized erythrocyte. An example of this component is found in Plasmodium species." [GOC:mb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:172881:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-172882-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-172931-synonym: "Maurers cleft" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:172932:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-172933-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-173471-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:173472:def: "The process whose specific outcome is the progression of the optic nerve over time, from its formation to the mature structure. The sensory optic nerve originates from the bipolar cells of the retina and conducts visual information to the brainstem. The optic nerve exits the back of the eye in the orbit, enters the optic canal, and enters the central nervous system at the optic chiasm (crossing) where the nerve fibers become the optic tract just prior to entering the hindbrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, ISBN:0838580343]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-173473-comment: This term was added by GO_REF:0000021.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-174251-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:174252:def: "The process in which the anatomical structure of the optic nerve is generated and organized. The sensory optic nerve originates from the bipolar cells of the retina and conducts visual information to the brainstem. The optic nerve exits the back of the eye in the orbit, enters the optic canal, and enters the central nervous system at the optic chiasm (crossing) where the nerve fibers become the optic tract just prior to entering the hindbrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, ISBN:0838580343]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-174253-comment: This term was added by GO_REF:0000021.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-174261-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:174262:def: "A developmental process, independent of morphogenetic (shape) change, that is required for the optic nerve to attain its fully functional state. The sensory optic nerve originates from the bipolar cells of the retina and conducts visual information to the brainstem. The optic nerve exits the back of the eye in the orbit, enters the optic canal, and enters the central nervous system at the optic chiasm (crossing) where the nerve fibers become the optic tract just prior to entering the hindbrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, ISBN:0838580343]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-174263-comment: This term was added by GO_REF:0000021.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-174271-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:174272:def: "The process that contributes to the act of creating the structural organization of the optic nerve. This process pertains to the physical shaping of a rudimentary structure. The sensory optic nerve originates from the bipolar cells of the retina and conducts visual information to the brainstem. The optic nerve exits the back of the eye in the orbit, enters the optic canal, and enters the central nervous system at the optic chiasm (crossing) where the nerve fibers become the optic tract just prior to entering the hindbrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, ISBN:0838580343]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-174273-comment: This term was added by GO_REF:0000021.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-174282-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:174283:def: "The process that gives rise to the optic nerve. This process pertains to the initial formation of a structure from unspecified parts. The sensory optic nerve originates from the bipolar cells of the retina and conducts visual information to the brainstem. The optic nerve exits the back of the eye in the orbit, enters the optic canal, and enters the central nervous system at the optic chiasm (crossing) where the nerve fibers become the optic tract just prior to entering the hindbrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, ISBN:0838580343]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-174284-comment: This term was added by GO_REF:0000021.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-184404-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:184405:def: "The cytoplasm of a host cell." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-184406-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-185868-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:185869:def: "Partial constriction of the cytoplasm of an embryo to form a furrow that resembles a cleavage furrow but does not complete cytokinesis." [GOC:mah, PMID:10751167, PMID:7729583]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-185870-is_a: GO:0032501 ! multicellular organismal process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-185876-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:185877:def: "Formation of furrows in the cytoplasm between nuclei during cell cycles in embryos that contribute to the formation of the syncytial blastoderm. An example of this process is found in Drosophila melanogaster." [GOC:mtg_sensu]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-185878-synonym: "pseudocleavage during syncytial blastoderm formation" RELATED [GOC:dph]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-186856-def: "Any of several heterodimers containing one or two Noc proteins, associated with preribosomal complexes; involved in ribosome biogenesis." [PMID:12446671]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:186857:comment: Noc complexes exhibit a dynamic intranuclear location; consider also annotating to 'nucleolus ; GO:0005730' and/or 'nucleoplasm ; GO:0005654'. Note that the definition uses Saccharomyces gene product names because this complex has only been described in Saccharomyces cerevisiae and no other names have yet arisen; the term nevertheless can be used for analogous complexes in other eukaryotes, and the definition can be changed if better wording is found.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-186858-subset: goslim_pir
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-186866-def: "A heterodimer associated with 90S and 66S preribosomes. Predominantly, but not exclusively, nucleolar; involved in ribosomal large subunit biogenesis." [PMID:12446671]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:186867:comment: Noc complexes exhibit a dynamic intranuclear location; consider also annotating to 'nucleolus ; GO:0005730' and/or 'nucleoplasm ; GO:0005654'. Note that the term name uses Saccharomyces gene product names because no other names have yet arisen for this complex; the term nevertheless can be used for analogous complexes in other eukaryotes, and the name can be changed if better wording is found.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-186868-is_a: GO:0030689 ! Noc complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-186876-def: "A heterodimer associated with 66S preribosomes; predominantly nucleoplasmic, but also locates to the nucleolus; involved in ribosomal large subunit biogenesis." [PMID:12446671]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:186877:comment: Noc complexes exhibit a dynamic intranuclear location; consider also annotating to 'nucleolus ; GO:0005730' and/or 'nucleoplasm ; GO:0005654'. Note that the term name uses Saccharomyces gene product names because no other names have yet arisen for this complex; the term nevertheless can be used for analogous complexes in other eukaryotes, and the name can be changed if better wording is found.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-186878-is_a: GO:0030689 ! Noc complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-186885-def: "A heterodimer associated with precursors of the eukaryotic small ribosomal subunit, including the 90S preribosome; involved in small subunit biogenesis." [PMID:12446671]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:186886:comment: Noc complexes exhibit a dynamic intranuclear location; consider also annotating to 'nucleolus ; GO:0005730' and/or 'nucleoplasm ; GO:0005654' and/or 'nuclear pore ; GO:0005643'. Note that the term name uses Saccharomyces gene product names because no other names have yet arisen for this complex; the term nevertheless can be used for analogous complexes in other eukaryotes, and the name can be changed if better wording is found.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-186887-synonym: "Nop7 complex" EXACT [GOC:jh, GOC:mah]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-186919-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:186920:def: "The central portion of the bacterial-type flagellar basal body, which spans the periplasm and threads through the rings." [GOC:cilia, GOC:mtg_sensu, PMID:10572114, PMID:11133968, PMID:12624192]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-186921-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-187202-is_a: GO:0071826 ! ribonucleoprotein complex subunit organization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:187203:relationship: part_of GO:0007315 ! pole plasm assembly
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-187204-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-191880-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:191881:def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of structures formed of microtubules and associated proteins in the cytoplasm of a cell." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-191882-synonym: "cytoplasmic microtubule organisation" EXACT [GOC:curators]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-192918-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:192919:def: "The side of the outer membrane that is opposite to the side that faces the periplasm of the cell." [GOC:mlg, GOC:mtg_sensu]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-192920-comment: In GO, 'external side' still refers to part of the membrane and does not refer to components beyond (outside of) the membrane.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-192931-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:192932:def: "The side (leaflet) of the outer membrane that faces the periplasm of the cell." [GOC:mlg, GOC:mtg_sensu]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-192933-comment: In GO, 'internal side' still refers to part of the membrane and does not refer to components beyond (inside of) the membrane.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-193132-is_a: GO:0032993 ! protein-DNA complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:193133:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-193134-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-194814-alt_id: GO:0016023
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:194815:def: "A vesicle found in the cytoplasm of a cell." [GOC:ai, GOC:mah, GOC:vesicles]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-194816-subset: goslim_agr
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-194952-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:194953:def: "The process in which the cytoplasm of the outermost cells of the vertebrate epidermis is replaced by keratin. Keratinization occurs in the stratum corneum, feathers, hair, claws, nails, hooves, and horns." [GOC:dph, GOC:ebc, GOC:sdb_2009, GOC:tb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-194954-is_a: GO:0032501 ! multicellular organismal process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-200219-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:200220:def: "The directed movement of mRNA from the nucleus to the cytoplasm during a heat stimulus, a temperature stimulus above the optimal temperature for the organism; in particular, a process that enables an organism withstand exposure to temperatures that would otherwise lethally impair poly(A)+ mRNA-nucleus export." [GOC:mah, GOC:vw]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-200221-synonym: "mRNA export from cell nucleus during heat stress" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-200527-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:200528:def: "A prominent mass in the cytoplasm of previtellogenic oocytes. The cloud contains both mitochondria and electron-dense granulofibrillar material (GFM) and is the source of germinal granule material." [PMID:6541166]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-200529-synonym: "Balbiani body" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-200683-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:200684:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-200685-relationship: part_of GO:0016591 ! DNA-directed RNA polymerase II, holoenzyme
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-202948-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:202949:def: "A cytoplasm to vacuole targeting pathway that uses machinery common with autophagy. The Cvt vesicle is formed when the receptor protein, Atg19, binds to the complexes of the target protein (aminopeptidase or alpha-mannosidase homododecamers), forming the Cvt complex. Atg11 binds to Atg9 and transports the Cvt complex to the pre-autophagosome (PAS). The phagophore membrane expands around the Cvt complex (excluding bulk cytoplasm) forming the Cvt vesicle. This pathway is mostly observed in yeast." [PMID:12865942, PMID:15659643]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:202950:synonym: "cytoplasm to vacuole targeting" BROAD []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-202951-synonym: "cytoplasm-to-vacuole targeting" BROAD []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-205049-alt_id: GO:0071775
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:205050:def: "Any process that modulates the frequency, rate or extent of the division of the cytoplasm of a cell and its separation into two daughter cells." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-205051-synonym: "regulation of cell cycle cytokinesis" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-205060-alt_id: GO:0071776
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:205061:def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the division of the cytoplasm of a cell, and its separation into two daughter cells." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-205062-synonym: "down regulation of cytokinesis" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-205076-alt_id: GO:0071777
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:205077:def: "Any process that activates or increases the frequency, rate or extent of the division of the cytoplasm of a cell, and its separation into two daughter cells." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-205078-synonym: "activation of cytokinesis" NARROW []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-205453-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:205454:def: "A cellular process that is involved in cytokinesis (the division of the cytoplasm of a cell and its separation into two daughter cells)." [GOC:bf, GOC:isa_complete, GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-205455-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-208581-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:208582:def: "A protein complex that contains the survival motor neuron (SMN) protein and at least eight additional integral components, including the Gemin2-8 and Unrip proteins; the complex is found in the cytoplasm and in nuclear Gems, and is involved in spliceosomal snRNP assembly in the cytoplasm and in pre-mRNA splicing in the nucleus." [PMID:16434402, PMID:17023415]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-208583-comment: Note that a larger complex containing Sm proteins and other subunits is also sometimes referred to as the 'SMN complex'. The larger complex is represented by 'SMN-Sm protein complex ; GO:0034719'.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-211890-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:211891:def: "A cytosolic vesicle that is enclosed by a double membrane and is implicated in the cytoplasm to vacuole targeting pathway. These vesicles are found in the yeast S. cerevisiae, and contain vacuolar hydrolases, aminopeptidase I (Ape1p) and alpha-mannosidase (Ams1p)." [GOC:rb, PMID:15138258]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:211892:synonym: "cytoplasm to vacuole targeting vesicle" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-211893-synonym: "cytoplasm-to-vacuole targeting vesicle" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-211908-def: "Either of the two lipid bilayers surrounding a Cvt vesicle, a vesicle that functions in the cytoplasm-to-vacuole targeting (Cvt) pathway." [GOC:ecd, PMID:20065092]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:211909:synonym: "cytoplasm to vacuole targeting vesicle membrane" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-211910-synonym: "cytoplasm-to-vacuole targeting vesicle membrane" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-212387-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:212388:def: "Any process that modulates the vectorial transfer of a protein from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-212389-synonym: "regulation of protein import into cell nucleus, translocation" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-212396-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:212397:def: "Any process that stops, prevents or reduces the vectorial transfer of a protein from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-212398-synonym: "negative regulation of protein import into cell nucleus, translocation" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-212406-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:212407:def: "Any process that activates or increases the vectorial transfer of a protein from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-212408-synonym: "positive regulation of protein import into cell nucleus, translocation" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-212852-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:212853:def: "A cell cycle process that results in the division of the cytoplasm of a cell after meiosis, resulting in the separation of the original cell into two daughter cells." [GOC:mtg_cell_cycle]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-212854-synonym: "cytokinesis after meiosis" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-213739-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:213740:def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a contractile vacuole. A specialized vacuole that fills with water from the cytoplasm and then discharges this externally by the opening of contractile vacuole pores." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-213741-synonym: "contractile vacuole organisation" EXACT [GOC:mah]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-214775-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:214776:def: "A ribonucleoprotein complex found in the cytoplasm of male germ cells, composed of exceedingly thin filaments that are consolidated into a compact mass or into dense strands of varying thickness that branch to form an irregular network. Contains mRNAs, miRNAs, and protein components involved in miRNA processing (such as Argonaute proteins and the endonuclease Dicer) and in RNA decay (such as the decapping enzyme DCP1a and GW182)." [PMID:17183363]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-214777-is_a: GO:0036464 ! cytoplasmic ribonucleoprotein granule
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-217495-is_a: GO:0033648 ! host intracellular membrane-bounded organelle
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:217496:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-217497-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-217501-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:217502:def: "Any member of a family of organelles as found in the cytoplasm of host cells, which are membrane-bounded and contain DNA. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:pamgo_curators]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-217503-is_a: GO:0033648 ! host intracellular membrane-bounded organelle
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:217504:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-217505-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-217532-id: GO:0033655
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:217533:name: host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-217534-namespace: cellular_component
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-217538-subset: gosubset_prok
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:217539:synonym: "cytoplasm component" BROAD []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-217540-is_a: GO:0033646 ! host intracellular part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-218904-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:218905:def: "A region in the lower half of some cells formed from extensive infoldings of the basal plasma membrane; includes cytoplasm adjacent to the infolded membrane." [GOC:mah, GOC:sart, PMID:11640882]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-218906-is_a: GO:0044464 ! cell part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-224721-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:224722:def: "Any process that decreases the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-224723-is_a: GO:0051093 ! negative regulation of developmental process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-225031-def: "A protein complex that is involved in the Cvt pathway. In budding yeast, the Cvt complex consists of multimers of preApe1p." [GOC:rb, PMID:15659643]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:225032:synonym: "cytoplasm to vacuole targeting complex" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-225033-synonym: "cytoplasm-to-vacuole targeting complex" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-225715-def: "OBSOLETE. Any process in which a ligand-bound hormone receptor acts in the nucleus to modulate the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GO_REF:0000021, GOC:mah, GOC:mh]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:225716:comment: This term was added by GO_REF:0000021. This term was made obsolete because it is unclear whether the term represents the action of the receptor or the entire process of transcription regulation. The term 'nuclear hormone receptor' is also misleading since many of these receptors reside in the cytoplasm until they are bound by a ligand.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-225717-synonym: "regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-227412-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:227413:def: "A multisubunit proteasome complex that localizes in the cytoplasm as dot-like structures when cells are in a quiescent state." [GOC:rb, PMID:18504300]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-227414-synonym: "PSG" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-227444-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:227445:def: "A protein complex found in the cytoplasm that binds the 5' cap structure of an mRNA, and typically consists of the cap-binding protein eIF4E, the adaptor protein eIF4G, and a multi-factor complex comprising eIF1, eIF2, eIF3 and eIF5. This complex mediates recruitment of the 40S subunit to mRNA." [PMID:16405910]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-227446-is_a: GO:0005845 ! mRNA cap binding complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-229541-synonym: "TFIIIC-Topoisomerase 1-PC4 complex" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:229542:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-229543-is_a: GO:0090576 ! RNA polymerase III transcription factor complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-232342-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:232343:def: "The directed movement of a pre-mRNA splicing factor from the cytoplasm into the nucleus, across the nuclear membrane." [GOC:bf]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:232344:synonym: "splicing factor protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-232345-synonym: "splicing factor protein-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-232736-is_a: GO:0034708 ! methyltransferase complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:232737:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-232738-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-233521-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:233522:def: "The first nine mitotic division cycles of the insect embryo, during which the dividing nuclei lie deep in the interior of the egg and divide nearly synchronously. This is the first phase of the syncytial period where nuclei divide in a common cytoplasm without cytokinesis." [ISBN:0879694238]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-233523-is_a: GO:0033301 ! cell cycle comprising mitosis without cytokinesis
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-233529-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:233530:def: "Mitotic division cycles 10 to 13 of the insect embryo. This is the second phase of the syncytial period where nuclei divide in a common cytoplasm without cytokinesis. The majority of migrating nuclei reach the embryo surface during cycle 10, after which they divide less synchronously than before, and the syncytial blastoderm cycles lengthen progressively." [ISBN:0879694238]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-233531-is_a: GO:0033301 ! cell cycle comprising mitosis without cytokinesis
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-233946-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:233947:def: "A long, thin, polarized cell projection that contains actin and can extend for distances many times the diameter of the cell. Cytonemes represent extensions of cell cytoplasm and typically have a diameter of approximately 0.2um." [PMID:10367889, PMID:10675901]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-233948-subset: goslim_pir
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-234416-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:234417:def: "Transport of pre-microRNAs (pre-miRNAs) from the nucleus to the cytoplasm. Pre-miRNAs are a ~60-70 nucleotide stem loop intermediate in miRNA production, produced by the nuclear cleavage of a primary miRNA (pri-mRNA) transcript. Pre-miRNAs are transported from the nucleus to the cytoplasm where further cleavage occurs to produce a mature miRNA product." [GOC:sl, PMID:14744438]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-234418-synonym: "pre-microRNA export from cell nucleus" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-238579-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:238580:def: "The directed movement of tRNA from the cytoplasm to the nucleus." [GOC:vw, PMID:20032305]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-238581-synonym: "retrograde tRNA transport into nucleus" EXACT [GOC:vw, PMID:20032305]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-238914-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:238915:def: "The chemical reactions and pathways occurring in the cytoplasm and resulting in the breakdown of a ribosomal RNA (rRNA) molecule, initiated by the enzymatic addition of a sequence of adenylyl residues (polyadenylation) at the 3' end the target rRNA truncated degradation intermediate." [PMID:20368444]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-238916-synonym: "cytoplasmic poly(A)-dependent rRNA catabolic process" RELATED [GOC:vw]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-239804-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:239805:def: "The process in which the developmental fate of a cell becomes restricted such that it will develop into a eosinophil cell. A eosinophil is any of the immature or mature forms of a granular leukocyte with a nucleus that usually has two lobes connected by one or more slender threads of chromatin, and cytoplasm containing coarse, round granules that are uniform in size and which can be stained by the dye eosin." [CL:0000771, GOC:BHF, GOC:vk]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-239806-synonym: "eosinophil cell fate commitment" EXACT [GOC:bf]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-241211-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:241212:def: "The process in which a relatively unspecialized cell acquires the specialized features of a tendon cell. Tendon cell are elongated fibrocytes in which the cytoplasm is stretched between the collagen fibres of the tendon. Tendon cells have a central cell nucleus with a prominent nucleolus, a well-developed rough endoplasmic reticulum, and are responsible for synthesis and turnover of tendon fibres and ground substance." [CL:0000388, GOC:yaf, PMID:21412429]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-241213-synonym: "muscle attachment cell differentiation" EXACT [CL:0000388]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-241369-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:241370:def: "A body present in the cytoplasm of some dinoflagellates, which is the source of bioluminescence; emits light on acidification in the presence of oxygen." [GOC:mag, GOC:pr, PMID:4501583, PMID:5642469]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-241371-is_a: GO:0044444 ! cytoplasmic part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-241666-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:241667:def: "A protein complex that is located at the ciliary transition zone and consists of several proteins some of which are membrane bound. Acts as an organiser of transition zone inner structure, specifically the Y-shaped links, in conjunction with the NPHP complex. The MKS complex also acts as part of the selective barrier that prevents diffusion of proteins between the ciliary cytoplasm and cellular cytoplasm as well as between the ciliary membrane and plasma membrane." [GOC:cilia, GOC:sp, PMID:21422230, PMID:21565611, PMID:21725307, PMID:22179047, PMID:25869670, PMID:26595381, PMID:26982032]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-241668-comment: Although there is some evidence, it is still unclear if the MKS and NPHP complexes are constituents parts of the Y-shaped links or are simply responsible for aligning and attaching the Y-shaped links to the membrane and axoneme.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-242158-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:242159:def: "Advancement of the cleavage furrow from the outside of the cell inward towards the center of the cell. The cleavage furrow acts as a 'purse string' which draws tight to separate daughter cells during cytokinesis and partition the cytoplasm between the two daughter cells. The furrow ingresses until a cytoplasmic bridge is formed." [PMID:15811947, PMID:20687468]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-242160-comment: Consider also annotating to 'contractile ring contraction involved in cell cycle cytokinesis ; GO:0000916'.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-243124-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:243125:def: "A prolongation or process extending from a muscle cell. A muscle cell is a mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns." [CL:0000187, GOC:kmv, PMID:15930100, PMID:22464329]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-243126-synonym: "muscle arm" NARROW [GOC:kmv]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-243777-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:243778:def: "A multiprotein ATPase complex involved in the release of polyubiquitinated proteins, including those damaged by oxidative stress, from the outer mitochondria membrane into the cytoplasm where they are presented to the proteasome for proteolysis, a process also referred to as mitochondria-associated degradation (MAD). In budding yeast, this complex includes Cdc48p, Npl4p and Vms1p." [GOC:rn, PMID:21070972, PMID:21936843]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-243779-synonym: "Cdc48p-Npl4p-Vms1p complex" EXACT [GOC:rn]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-243914-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:243915:def: "Any process that activates or increases the frequency, rate or extent of directed movement of proteins from the nucleus into the cytoplasm in response to deprivation of glucose." [GOC:al, PMID:3541942]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-243916-is_a: GO:0042149 ! cellular response to glucose starvation
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-243948-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:243949:def: "OBSOLETE. Any process that activates or increases the frequency, rate or extent of the movement of a transcription factor from the cytoplasm to the nucleus under conditions of oxidative stress." [GOC:al, PMID:9585505]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-243950-comment: The reason for obsoletion is that there is no distinct pathway to import transcription factors into the nucleus.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-248815-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:248816:def: "Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of movement of mRNA from the nucleus to the cytoplasm in the host organism." [GOC:bf, GOC:sp, UniProtKB-KW:KW-1099, VZ:902]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-248817-subset: virus_checked
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-250229-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:250230:def: "OBSOLETE The transport of a virus between adjacent cells in a multicellular organism using plasmodesmata. Plasmodesma is a fine cytoplasmic channel found in all higher plants, which connects the cytoplasm of one cell to that of an adjacent cell." [UniProtKB-KW:KW-0916, VZ:1018]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-250231-synonym: "spread of virus in host, cell to cell via plasmodesmata" RELATED [GOC:bf, GOC:jl]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-250777-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:250778:def: "A viral factory located in the cytoplasm of a host cell." [VZ:1951]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:250779:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-250780-is_a: GO:0039713 ! viral factory
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-250791-id: GO:0039716
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:250792:name: viroplasm viral factory
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-250793-namespace: cellular_component
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-251168-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:251169:def: "Any process that modulates the frequency, rate or extent of gene expression; the process is mitotically or meiotically heritable, or is stably self-propagated in the cytoplasm of a resting cell, and does not entail a change in DNA sequence." [PMID:10521337, PMID:11498582]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-251170-subset: goslim_plant
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-251261-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:251262:def: "The cell cycle process in which two small cells are generated, as byproducts destined to degenerate, as a result of the first and second meiotic divisions of a primary oocyte during its development to a mature ovum. One polar body is formed in the first division of meiosis and the other in the second division; at each division, the cytoplasm divides unequally, so that the polar body is of much smaller size than the developing oocyte. At the second division in which a polar body is formed, the polar body and the developing oocyte each contain a haploid set of chromosomes." [GOC:ems, ISBN:0198506732]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-251263-is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254353-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:254354:def: "A protein complex that contains two proteins (know in several organisms, including Drosophila, as NXF1 and NXF2) and is required for the export of the majority of mRNAs from the nucleus to the cytoplasm; localized in the nucleoplasm and at both the nucleoplasmic and cytoplasmic faces of the nuclear pore complex; shuttles between the nucleus and the cytoplasm." [PMID:11780633]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254355-synonym: "Mex67-Mtr2 complex" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254358-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:254359:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254360-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254718-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:254719:def: "Any process that modulates the frequency, rate or extent of movement of proteins from the cytoplasm to the nucleus." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254720-synonym: "regulation of protein import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:254721:synonym: "regulation of protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254722-synonym: "regulation of protein-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254732-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:254733:def: "Any process that activates or increases the frequency, rate or extent of movement of proteins from the cytoplasm into the nucleus." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254734-synonym: "activation of protein import into nucleus" NARROW []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254735-synonym: "positive regulation of protein import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:254736:synonym: "positive regulation of protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254737-synonym: "positive regulation of protein-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254752-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:254753:def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the movement of proteins from the cytoplasm into the nucleus." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254754-synonym: "down regulation of protein import into nucleus" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254758-synonym: "negative regulation of protein import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:254759:synonym: "negative regulation of protein transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-254760-synonym: "negative regulation of protein-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261950-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:261951:def: "OBSOLETE. Any process that modulates the frequency, rate or extent of the movement of a transcription factor from the cytoplasm to the nucleus." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261952-comment: The reason for obsoletion is that there is no distinct pathway to import transcription factors into the nucleus.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261953-synonym: "regulation of transcription factor import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:261954:synonym: "regulation of transcription factor transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261955-synonym: "regulation of transcription factor-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261961-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:261962:def: "OBSOLETE. The directed movement of a transcription factor from the cytoplasm to the nucleus." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261963-comment: The reason for obsoletion is that there is no distinct pathway to import transcription factors into the nucleus.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261964-synonym: "transcription factor import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:261965:synonym: "transcription factor transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261966-synonym: "transcription factor-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261972-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:261973:def: "OBSOLETE. Any process that stops, prevents, or reduces the frequency, rate or extent of the movement of a transcription factor from the cytoplasm to the nucleus." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261974-comment: The reason for obsoletion is that there is no distinct pathway to import transcription factors into the nucleus.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261979-synonym: "negative regulation of transcription factor import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:261980:synonym: "negative regulation of transcription factor transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261981-synonym: "negative regulation of transcription factor-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261987-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:261988:def: "OBSOLETE. Any process that activates or increases the frequency, rate or extent of the movement of a transcription factor from the cytoplasm to the nucleus." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261989-comment: The reason for obsoletion is that there is no distinct pathway to import transcription factors into the nucleus.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261991-synonym: "positive regulation of transcription factor import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:261992:synonym: "positive regulation of transcription factor transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-261993-synonym: "positive regulation of transcription factor-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-264020-alt_id: GO:0043192
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:264021:def: "A complex for the transport of metabolites into and out of the cell, typically comprised of four domains; two membrane-associated domains and two ATP-binding domains at the intracellular face of the membrane, that form a central pore through the plasma membrane. Each of the four core domains may be encoded as a separate polypeptide or the domains can be fused in any one of a number of ways into multidomain polypeptides. In Bacteria and Archaebacteria, ABC transporters also include substrate binding proteins to bind substrate external to the cytoplasm and deliver it to the transporter." [GOC:jl, GOC:mtg_sensu, PMID:11421269, PMID:15111107]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-264022-subset: goslim_metagenomics
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-264266-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:264267:def: "Non-compact myelin located adjacent to the nodes of Ranvier in a myelin segment. These non-compact regions include cytoplasm from the cell responsible for synthesizing the myelin. Lateral loops are found in the paranodal region adjacent to the nodes of Ranvier, while Schmidt-Lantermann clefts are analogous structures found within the compact myelin internode." [GOC:dgh]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-264268-synonym: "oligodendrocyte paranodal termination" RELATED [NIF_Subcellular:sao1354781919]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-264280-alt_id: GO:0044287
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:264281:def: "Regions within compact myelin in which the cytoplasmic faces of the enveloping myelin sheath are not tightly juxtaposed, and include cytoplasm from the cell responsible for making the myelin. Schmidt-Lanterman incisures occur in the compact myelin internode, while lateral loops are analogous structures found in the paranodal region adjacent to the nodes of Ranvier." [GOC:dgh]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-264282-synonym: "Schmidt-Lanterman cleft" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-264452-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:264453:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-264454-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-267998-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:267999:def: "The creation of two or more plastids by division of one plastid. A plastid is any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-268000-is_a: GO:0048285 ! organelle fission
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-268850-is_a: GO:0033648 ! host intracellular membrane-bounded organelle
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:268851:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-268852-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-273571-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:273572:def: "A highly specialized structure unique to microsporidia that is required for host cell invasion. In the spore, the polar tube is connected at the anterior end, and then coils around the sporoplasm. Upon appropriate environmental stimulation, the polar tube rapidly discharges out of the spore, pierces a cell membrane and serves as a conduit for sporoplasm passage into the new host cell." [GOC:mf, PMID:12076771, PMID:9723921]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-273573-is_a: GO:0044464 ! cell part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-273578-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:273579:def: "The complex infective apparatus corresponding to the central mass of cytoplasm within a spore that is injected into a host cell by various parasitic microorganisms." [GOC:mf, PMID:12076771, PMID:16004371, PMID:9723921]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-273580-is_a: GO:0044424 ! intracellular part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274131-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274132:def: "A small pit, depression, or invagination, such as any of the minute pits or incuppings of the host cell membrane formed during pinocytosis, that communicates with the outside of a host cell and extends inward, indenting the host cytoplasm and the host cell membrane. Such caveolae may be pinched off to form free vesicles within the host cytoplasm. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:rph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274133-is_a: GO:0033643 ! host cell part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274163-def: "A membranous cellular structure within the host cell that bears the photosynthetic pigments in plants, algae, and cyanobacteria. In cyanobacteria thylakoids are of various shapes and are attached to, or continuous with, the host plasma membrane. In eukaryotic host cells they are flattened, membrane-bounded disk-like structures located in the chloroplasts; in the chloroplasts of higher plants the thylakoids form dense stacks called grana. Isolated thylakoid preparations can carry out photosynthetic electron transport and the associated phosphorylation." [GOC:rph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274164:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274165-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274171-is_a: GO:0033644 ! host cell membrane
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274172:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274173-relationship: part_of GO:0044159 ! host thylakoid
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274178-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274179:def: "A vesicle formed of membrane or protein, found in the cytoplasm of a host cell." [GOC:rph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274180-is_a: GO:0033648 ! host intracellular membrane-bounded organelle
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274181:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274182-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274188-is_a: GO:0033644 ! host cell membrane
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274189:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274190-relationship: part_of GO:0044161 ! host cell cytoplasmic vesicle
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274202-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274203:def: "The part of the host cell cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274204-subset: gosubset_prok
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274205-synonym: "host cytosol" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274206:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274207-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274211-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274212:def: "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the host cell cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The host ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached)." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274213-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274215-is_a: GO:0033648 ! host intracellular membrane-bounded organelle
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274216:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274217-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274224-synonym: "host endoplasmic reticulum lumen" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274225:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274226-relationship: part_of GO:0044165 ! host cell endoplasmic reticulum
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274242-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274243:def: "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the host cell cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The host rough ER has ribosomes adhering to the outer surface." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274244-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274261-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274262:def: "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the host cell cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The host smooth ER has no ribosomes adhering to the outer surface." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274263-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274285-is_a: GO:0033648 ! host intracellular membrane-bounded organelle
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274286:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274287-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274307-is_a: GO:0033648 ! host intracellular membrane-bounded organelle
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274308:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274309-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274334-synonym: "host Golgi apparatus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274335:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274336-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274412-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274413:def: "Any particle of coalesced lipids in the cytoplasm of a host cell. May include associated proteins." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274414-subset: gosubset_prok
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274417-synonym: "host cell lipid particle" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274418:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274419-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274426-is_a: GO:0033648 ! host intracellular membrane-bounded organelle
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274427:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274428-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274455-subset: gosubset_prok
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274456:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274457-relationship: part_of GO:0033650 ! host cell mitochondrion
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274710-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274711:def: "A fine cytoplasmic channel, found in all higher plants, that connects the cytoplasm of one host cell to that of an adjacent host cell." [GOC:rph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274712-is_a: GO:0044156 ! host cell junction
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274717-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274718:def: "The host cell cytoplasm situated near, or occurring around, the host nucleus." [GOC:rph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:274719:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-274720-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-276353-alt_id: GO:0098738
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:276354:def: "The directed movement of the DNA-directed RNA polymerase II core complex from the cytoplasm into the nucleus." [GOC:dos, GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-276355-synonym: "DNA-directed RNA polymerase II core complex import into nucleus" EXACT [GO:0098738]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-276894-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:276895:def: "Any constituent part of a mitochondrion, a semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-276896-comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-276938-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:276939:def: "Any constituent part of the endoplasmic reticulum, the irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-276940-comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-276951-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:276952:def: "Any constituent part of cytoplasmic vesicle, a vesicle formed of membrane or protein, found in the cytoplasm of a cell." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-276953-comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-276975-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:276976:def: "Any constituent part of a plastid, a member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-276977-comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-277092-subset: gosubset_prok
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:277093:synonym: "cytoplasm component" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-277094-is_a: GO:0044424 ! intracellular part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-277100-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:277101:def: "Any constituent part of cytosol, that part of the cytoplasm that does not contain membranous or particulate subcellular components." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-277102-comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-277177-id: GO:0044451
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:277178:name: nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-277179-namespace: cellular_component
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-279248-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:279249:def: "Injection by a non-enveloped virus of the viral genome into the host cytoplasm through creation of a pore or channel in the host cell membrane(s). Usually mediated by a viral pore-forming peptide associated with the viral capsid or bacteriophage tail." [GOC:jl, UniProtKB-KW:KW-1172, VZ:979]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-279250-comment: This mechanism is used by animal viruses such as poliovirus. Various tailed bacteriophages also carry specialized proteins which open a pore or a channel in the host membrane(s) to allow genome delivery into host cytoplasm.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-282619-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:282620:def: "A direct connection between the cytoplasm of two cells that is formed following the completion of cleavage furrow ingression during cell division. They are usually present only briefly prior to completion of cytokinesis. However, in some cases, such as the bridges between germ cells during their development, they become stabilised." [PMID:9635420]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-282621-is_a: GO:0044421 ! extracellular region part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-286164-id: GO:0045451
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:286165:name: pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-286166-namespace: biological_process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-286168-synonym: "establishment and maintenance of oskar mRNA localization in pole plasm" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:286169:synonym: "establishment and maintenance of pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:286170:synonym: "oocyte pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:286171:synonym: "pole plasm oskar mRNA localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:286172:is_a: GO:0019094 ! pole plasm mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-286173-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-286645-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:286646:def: "Differentiated cytoplasm associated with a pole (animal, vegetal, anterior, or posterior) of an oocyte, egg or early embryo." [GOC:kmv, PMID:17113380]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-286647-synonym: "germ plasm" NARROW []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291455-id: GO:0045855
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291456:name: negative regulation of pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291457-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291458-def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a process in which oskar mRNA is transported to, or maintained in, the oocyte pole plasm." [GOC:go_curators]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291459:synonym: "down regulation of pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291460:synonym: "down-regulation of pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291461:synonym: "downregulation of pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291462:synonym: "inhibition of pole plasm oskar mRNA localization" NARROW []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291463:synonym: "negative regulation of oocyte pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291464:synonym: "negative regulation of pole plasm oskar mRNA localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291465:is_a: GO:0007317 ! regulation of pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291466-is_a: GO:0051129 ! negative regulation of cellular component organization
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291470-is_a: GO:1904581 ! negative regulation of intracellular mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291471:relationship: negatively_regulates GO:0045451 ! pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291472-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291474-id: GO:0045856
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291475:name: positive regulation of pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291476-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291477-def: "Any process that activates or increases the frequency, rate or extent of the process in which oskar mRNA is transported to, or maintained in, the oocyte pole plasm." [GOC:go_curators]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291478:synonym: "activation of pole plasm oskar mRNA localization" NARROW []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291479:synonym: "positive regulation of oocyte pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291480:synonym: "positive regulation of pole plasm oskar mRNA localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291481:synonym: "stimulation of pole plasm oskar mRNA localization" NARROW []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291482:synonym: "up regulation of pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291483:synonym: "up-regulation of pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291484:synonym: "upregulation of pole plasm oskar mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291485:is_a: GO:0007317 ! regulation of pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291486-is_a: GO:0044089 ! positive regulation of cellular component biogenesis
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291491-is_a: GO:1904582 ! positive regulation of intracellular mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:291492:relationship: positively_regulates GO:0045451 ! pole plasm oskar mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-291493-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301076-id: GO:0046594
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:301077:name: maintenance of pole plasm mRNA location
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301078-namespace: biological_process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301080-def: "The process of maintaining mRNA in a specific location in the oocyte pole plasm. An example of this process is found in Drosophila melanogaster." [GOC:bf, GOC:dph, GOC:tb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:301081:synonym: "maintenance of oocyte pole plasm mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:301082:synonym: "maintenance of pole plasm mRNA localization" RELATED [GOC:dph, GOC:tb]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301083-is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301085-is_a: GO:0051651 ! maintenance of location in cell
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:301086:relationship: part_of GO:0019094 ! pole plasm mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301087-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301089-id: GO:0046595
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:301090:name: establishment of pole plasm mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301091-namespace: biological_process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301093-def: "Any process that results in the directed movement of mRNA to the oocyte pole plasm." [GOC:bf]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:301094:synonym: "establishment of oocyte pole plasm mRNA localization" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:301095:synonym: "establishment of pole plasm mRNA localisation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301096-is_a: GO:0022414 ! reproductive process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301097-is_a: GO:0051236 ! establishment of RNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:301098:relationship: part_of GO:0019094 ! pole plasm mRNA localization
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-301099-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-302165-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:302166:def: "An apical plasma membrane part that forms a narrow enfolded luminal membrane channel, lined with numerous microvilli, that appears to extend into the cytoplasm of the cell. A specialized network of intracellular canaliculi is a characteristic feature of parietal cells of the gastric mucosa in vertebrates." [GOC:mah, ISBN:0721662544, PMID:10700045]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-302167-is_a: GO:0044459 ! plasma membrane part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303040-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:303041:def: "The directed movement of intronless viral mRNA from the host nucleus to the cytoplasm for translation." [PMID:11598019]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303042-subset: virus_checked
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303381-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:303382:def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of substances between the cytoplasm and the nucleus." [GOC:bf]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303383-synonym: "down regulation of nucleocytoplasmic transport" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303459-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:303460:def: "Any process that modulates the frequency, rate or extent of movement of RNA from the cytoplasm to the nucleus." [GOC:bf]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303461-synonym: "regulation of RNA import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:303462:synonym: "regulation of RNA transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303463-synonym: "regulation of RNA-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303471-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:303472:def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the movement of RNA from the cytoplasm into the nucleus." [GOC:bf]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303473-synonym: "down regulation of RNA import into nucleus" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303477-synonym: "negative regulation of RNA import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:303478:synonym: "negative regulation of RNA transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303479-synonym: "negative regulation of RNA-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303488-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:303489:def: "Any process that activates or increases the frequency, rate or extent of movement of RNA from the cytoplasm into the nucleus." [GOC:bf]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303490-synonym: "activation of RNA import into nucleus" NARROW []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303491-synonym: "positive regulation of RNA import into cell nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:303492:synonym: "positive regulation of RNA transport from cytoplasm to nucleus" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-303493-synonym: "positive regulation of RNA-nucleus import" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-324233-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:324234:def: "Cytoplasm situated near, or occurring around, the nucleus." [GOC:jid]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-324235-comment: Note that this term should not be confused with the cellular component term 'nuclear membrane lumen ; GO:0005641', which has the synonym 'perinuclear space'.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-346420-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:346421:def: "The cell cycle phase which follows anaphase during M phase of mitosis and meiosis and during which the chromosomes arrive at the poles of the cell and the division of the cytoplasm starts." [GOC:mtg_cell_cycle]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-346422-comment: note that this term should not be used for direct annotation. if you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic s-phase). to capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-348449-def: "Any process that increases the concentration of calcium ions in the cytosol that occurs as part of a PLC-activating G-protein coupled receptor signaling pathway. G-protein-activated PLC hydrolyses phosphatidylinositol-bisphosphate (PIP2) to release diacylglycerol (DAG) and inositol trisphosphate (IP3). IP3 then binds to calcium release channels in the endoplasmic reticulum (ER) to trigger calcium ion release into the cytosol." [GOC:ai, GOC:signaling]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:348450:synonym: "elevation of calcium ion concentration in cytoplasm during G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)" BROAD []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-348451-synonym: "elevation of calcium ion concentration in cytosol during G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)" RELATED []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-349206-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:349207:def: "Any process involved in the maintenance of an internal steady state of calcium ions within the cytoplasm of a cell or between mitochondria and their surroundings." [GOC:ai, GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-349208-synonym: "calcium ion homeostasis in mitochondria" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-367257-alt_id: GO:1905659
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:367258:def: "A negative regulation of smooth muscle contraction resulting in relaxation of vascular smooth muscle. The relaxation is mediated by a decrease in the phosphorylation state of myosin light chain. This can be achieved by removal of calcium from the cytoplasm to the sarcoplasmic reticulum lumen through the action of Ca2+ ATPases leading to a decrease myosin light chain kinase activity, and through calcium-independent pathways leading to a increase in myosin light chain phosphatase activity." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:dph, GOC:rph, GOC:TermGenie, PMID:15867178, PMID:19996365, PMID:27389411]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-367259-synonym: "negative regulation of relaxation of vascular smooth muscle" RELATED []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-367789-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:367790:def: "The formation in a cell that has been targeted by a virus of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:dph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-367791-is_a: GO:0060142 ! regulation of syncytium formation by plasma membrane fusion
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-367797-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:367798:def: "The process in which a virus increases the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:dph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-367799-synonym: "syncytium formation induced by viral infection" EXACT [UniProtKB-KW:KW-1180]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-367807-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:367808:def: "Any process that modulates the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:dph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-367809-is_a: GO:0022603 ! regulation of anatomical structure morphogenesis
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-367816-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:367817:def: "Any process that increases the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:dph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-367818-is_a: GO:0051094 ! positive regulation of developmental process
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-369193-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:369194:def: "Differentiated cytoplasm associated with a pole of an oocyte, egg or early embryo that will be inherited by the cells that will give rise to the germ line." [GOC:dph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-369195-xref: Wikipedia:Germ_plasm
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-370823-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:370824:def: "Any process that decreases the rate, frequency or extent of fertilization. Fertilization is the union of gametes of opposite sexes during the process of sexual reproduction to form a zygote. It involves the fusion of the gametic nuclei (karyogamy) and cytoplasm (plasmogamy)." [GOC:dph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-370825-is_a: GO:0043901 ! negative regulation of multi-organism process
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-371218-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:371219:def: "The process in which a relatively unspecialized cell acquires specialized features of a Type I pneumocyte. A type I pneumocyte is a flattened cell with greatly attenuated cytoplasm and a paucity of organelles." [GOC:dph, GOC:mtg_lung, ISBN:0721662544]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-371220-synonym: "membranous pneumocyte differentiation" EXACT [GOC:dph, ISBN:0721662544]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-371228-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:371229:def: "The process in which a relatively unspecialized cell acquires specialized features of a Type II pneumocyte. A Type II pneumocyte is a surfactant secreting cell that contains abundant cytoplasm containing numerous lipid-rich multilamellar bodies." [GOC:dph, GOC:mtg_lung, ISBN:0721662544]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-371230-synonym: "granular pneumocyte differentiation" RELATED [GOC:dph, ISBN:0721662544]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-378651-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:378652:def: "The developmental process pertaining to the progression of the optic chiasm from its initial formation to the mature structure. The process begins when the pathfinding of the axons of the developing optic nerve cause some axons to cross at the midline of the brain and ends when the axons are mature." [GOC:dph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:378653:synonym: "optic chiasm development" EXACT [GOC:dph]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-378654-is_a: GO:0048856 ! anatomical structure development
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-380597-namespace: molecular_function
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:380598:def: "Combining with a nuclear import signal (NIS) to mediate transport of a NIS-containing protein through the nuclear pore, from the cytoplasm to the nucleus." [GOC:dph, GOC:vw, PMID:25802992]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-380599-synonym: "importin activity" RELATED []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-382409-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:382410:def: "An intracellular compartmentalized cilium structure found in insect spermatids which is bounded by a membrane derived from the invagination of the cell membrane that remains associated with the primary cilium as it is internalized. The ciliary cap is maintained at the end of the axoneme distal to the centriole and is separated from the cytosolic axoneme/cytoplasm by a putative transition zone, which may extend into the ciliary cap, and include a structure at the base of the ciliary cap termed the ring centriole." [PMID:25447994, PMID:27646273]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-382411-synonym: "spermatid ciliary cap" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-382424-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:382425:def: "The process in which an axoneme is exposed entirely or partially to the cytoplasm or by which the cytoplasmic portion is assembled or extended. Cytosolic ciliogenesis can occur following compartmentalized ciliogenesis, in which the cilium is formed within a compartment separated from the cytoplasm." [PMID:25447994, PMID:26654377]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-382426-synonym: "intracellular ciliogenesis" RELATED []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-382561-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:382562:def: "A protein complex which transports ferrous iron (Fe(III) or Fe3+) ions from the vacuole, the main storage component of intracellular free iron, into the cytoplasm in a low iron environment." [GOC:bhm, PMID:10608875, PMID:9413439]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-382563-comment: An example of this is FET5 in Saccharomyces cerevisiae (P43561) in PMID:9413439.
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-382617-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:382618:def: "The region of the neuronal cytoplasm located in dendritic spines." [PMID:15673667]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-382619-is_a: GO:0032839 ! dendrite cytoplasm
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-383128-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:383129:def: "A cellular process involving delivery of a portion of the cytoplasm to lysosomes or to the plant or fungal vacuole that does not involve direct transport through the endocytic or vacuolar protein sorting (Vps) pathways. This process typically leads to degradation of the cargo; however, it can also be used to deliver resident proteins, such as in the cytoplasm-to-vacuole targeting (Cvt) pathway." [PMID:21997368, PMID:22966490, PMID:28596378]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-383130-subset: gocheck_do_not_annotate
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-384666-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:384667:def: "An inclusion body located in the cytoplasm that consists of polyhydroxyalkanoate (PHA) molecules and associated proteins, surrounded by a phospholipid monolayer; the proteins include PHA synthase, PHA depolymerase and 3HB-oligomer hydroxylase, phasins (PhaPs), which are thought to be the major structural proteins of the membrane surrounding the inclusion, and the regulator of phasin expression PhaR." [GOC:mah, PMID:15762612]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-384668-subset: gosubset_prok
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-386496-def: "A transcription factor complex that is involved in regulating transcription from RNA polymerase III (Pol III) promoters. TFIIIE contains a specific subset of ribosomal proteins." [GOC:jp, PMID:19116144]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:386497:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-386498-is_a: GO:0090576 ! RNA polymerase III transcription factor complex
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-386931-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:386932:def: "The process in which a relatively unspecialized cell acquires specialized features of a lens fiber cell, any of the elongated, tightly packed cells that make up the bulk of the mature lens in the camera-type eye. The cytoplasm of a lens fiber cell is devoid of most intracellular organelles including the cell nucleus, and contains primarily crystallins, a group of water-soluble proteins expressed in vary large quantities." [GOC:mah, PMID:7693735]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-386933-synonym: "lens fibre cell differentiation" EXACT [GOC:mah]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-392239-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:392240:def: "The aggregation, arrangement and bonding together of a set of components to form a caveola. A caveola is a plasma membrane raft that forms a small pit, depression, or invagination that communicates with the outside of a cell and extends inward, indenting the cytoplasm and the cell membrane." [GOC:BHF, GOC:mah, GOC:vk, PMID:12633858]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-392241-synonym: "caveola formation" EXACT [GOC:mah]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-392331-synonym: "S mediator complex" EXACT [PMID:17043218]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:392332:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-392333-is_a: GO:0090575 ! RNA polymerase II transcription factor complex
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-392357-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:392358:def: "A protein complex that contains the transforming acidic coiled coil (TACC) protein and the TOG protein (Mia1p/Alp7p and Alp14, respectively, in fission yeast), and is involved in microtubule array remodeling as cells progress through the cell cycle. The TACC/TOG complex is conserved in eukaryotes, associates with microtubules, and shuttles between the nucleus and the cytoplasm during interphase." [GOC:mah, GOC:vw, PMID:19606211]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-392359-is_a: GO:0032991 ! protein-containing complex
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-393259-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:393260:def: "A cytoskeletal structure composed of filamentous protein that forms beneath the membrane of many cells or organelles, in the plane of cell or organelle division. Ring contraction is associated with centripetal growth of the membrane that divides the cytoplasm of the two daughter cells or organelles." [GOC:mah, ISBN:0123645859, ISBN:0792354923, PMID:10791428, PMID:17913889]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-393261-synonym: "constriction ring" RELATED [GOC:mah]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-393755-synonym: "Mcs6/Mcs2/Pmh1 complex" NARROW [GOC:vw, PMID:19328067]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:393756:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-393757-is_a: GO:0090575 ! RNA polymerase II transcription factor complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395311-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395312:def: "A protein complex that consists of a homo- or heterodimer of members of a family of structurally related proteins that contain a conserved N-terminal region called the Rel homology domain (RHD). In the nucleus, NF-kappaB complexes act as transcription factors. In unstimulated cells, NF-kappaB dimers are sequestered in the cytoplasm by IkappaB monomers; signals that induce NF-kappaB activity cause degradation of IkappaB, allowing NF-kappaB dimers to translocate to the nucleus and induce gene expression." [ISBN:0849327946]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395313-is_a: GO:0032991 ! protein-containing complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395387-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395388:def: "The directed movement of a ribonucleoprotein complex from the cytoplasm to the nucleus." [GOC:BHF, GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395389-synonym: "ribonucleoprotein complex import into cell nucleus" EXACT [GOC:mah]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395391-synonym: "ribonucleoprotein complex targeting to nucleus" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395392:synonym: "ribonucleoprotein complex transport from cytoplasm to nucleus" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395393-synonym: "ribonucleoprotein import into nucleus" EXACT [GOC:rl]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395469-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395470:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395471-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395478-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395479:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395480-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395487-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395488:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395489-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395496-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395497:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395498-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395505-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395506:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395507-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395514-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395515:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395516-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395523-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395524:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395525-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395532-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:395533:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-395534-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-396208-synonym: "Cvt vesicle formation" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:396209:synonym: "cytoplasm to vacuole targeting vesicle assembly" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-396210-synonym: "cytoplasm-to-vacuole targetin vesicle assembly" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-398858-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:398859:def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving macromolecules by a mechanism that is mediated by DNA, is mitotically or meiotically heritable, or is stably self-propagated in the cytoplasm of a resting cell, and does not entail a change in DNA sequence." [GOC:mah, GOC:vw]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-398860-synonym: "DNA imprinting" EXACT [GOC:mah]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-399000-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:399001:def: "The directed movement from the nucleus to the cytoplasm of a tRNA that was previously exported to the cytoplasm and then imported back into the nucleus. The processes of primary tRNA export and secondary export (re-export) can be distinguished because in organisms in which tRNA splicing occurs in the cytoplasm, the export of a mature tRNA must occur by re-export." [GOC:mcc, PMID:17475781, PMID:20032305]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-399002-synonym: "tRNA reexport from nucleus" EXACT [GOC:mcc]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-399667-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:399668:def: "A ribonucleoprotein complex that is found in the cytoplasm of axons and dendrites, and transports translationally silenced mRNAs to dendritic synapses, where they are released and translated in response to specific exogenous stimuli." [GOC:BHF, GOC:go_curators, GOC:mah, PMID:19015237, PMID:20368989]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-399669-synonym: "neuronal RNA granule" NARROW []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-399952-id: GO:0071629
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:399953:name: cytoplasm protein quality control by the ubiquitin-proteasome system
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-399954-namespace: biological_process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-401824-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:401825:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-401826-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-401842-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:401843:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-401844-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-406227-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:406228:def: "Ascus cytoplasm that is not packaged into ascospores." [DOI:10.1016/S0953-7562(96)80057-8, GOC:mcc]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:406229:comment: Note that this term is an is_a child of 'cell part' because the epiplasm is extracellular to the spore (each of which is a cell) but within the ascus structure, and originated from cytoplasm.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-406230-is_a: GO:0044464 ! cell part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-407742-subset: gosubset_prok
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:407743:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-407744-relationship: part_of GO:0044190 ! host cell mitochondrial envelope
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-407752-synonym: "host endosome lumen" EXACT [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:407753:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-407754-relationship: part_of GO:0044174 ! host cell endosome
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-407810-def: "OBSOLETE. Any process in which a ligand-bound hormone receptor acts in the nucleus to stop, prevent, or reduce the frequency, rate or extent of transcription from an RNA polymerase II promoter." [GOC:mah]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:407811:comment: This term was made obsolete because it is unclear whether the term represents the action of the receptor or the entire process of transcription regulation. The term 'nuclear hormone receptor' is also misleading since many of these receptors reside in the cytoplasm until they are bound by a ligand.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-407812-synonym: "negative regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-407955-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:407956:def: "A membrane-bounded compartment that forms in the cytoplasm of virus-infected cells, in which virus assembly takes place." [GOC:BHF, PMID:20374631]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-407957-synonym: "viral assembly site" RELATED [GOC:BHF]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-407965-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:407966:def: "A membrane-bounded compartment that forms in the cytoplasm of the host cell, in which virus assembly takes place." [GOC:BHF, PMID:20374631]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-407967-synonym: "host cell viral assembly site" RELATED [GOC:BHF]
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-408626-synonym: "nucleoplasmic box H/ACA RNP pseudouridylase complex" EXACT [GOC:mah, GOC:vw, PMID:20227365]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:408627:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-408628-is_a: GO:0072588 ! box H/ACA RNP complex
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-410763-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:410764:def: "The process in which the host cells digest parts of their own cytoplasm during interaction with its symbiont. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:pamgo_curators]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-410765-comment: Note that this term should be used to annotate gene products of host.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-411052-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:411053:def: "The process in which cells digest parts of their own cytoplasm during a symbiotic interaction; allows for both recycling of macromolecular constituents under conditions of cellular stress and remodeling the intracellular structure for cell differentiation. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:pamgo_curators]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-411054-comment: Note that this term should be used to annotate gene products of the organism involved in this process.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-411062-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:411063:def: "The process in which symbiont cells digest parts of their own cytoplasm during interaction with its host. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:pamgo_curators]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-411064-comment: Note that this term should be used to annotate gene products of symbiont.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-411119-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:411120:def: "Any process in which the host organism modulates the frequency, rate or extent of receptor-mediated signal transduction in the symbiont. The receptor is defined as a protein on the cell membrane or within the cytoplasm or cell nucleus that binds to a specific molecule (a ligand) such as a neurotransmitter or a hormone or other substance, and initiates the cellular response to the ligand. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:pamgo_curators]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-411121-comment: Note that this term is used to annotate gene products of the host. To annotate symbiont gene products, consider the biological process term "modulation by symbiont of host receptor-mediated signal transduction ; GO:0075109".
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-411429-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:411430:def: "Any process in which the symbiont modulates the frequency, rate or extent of receptor-mediated signal transduction in the host organism. The receptor is defined as a protein on the cell membrane or within the cytoplasm or cell nucleus that binds to a specific molecule (a ligand) such as a neurotransmitter or a hormone or other substance, and initiates the cellular response to the ligand. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:pamgo_curators]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-411431-comment: Note that this term is used to annotate gene products of the symbiont. To annotate host gene products, consider the biological process term "modulation by host of symbiont receptor-mediated signal transduction ; GO:0075078".
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413811-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:413812:def: "OBSOLETE. The uptake of a virus into a host cell that begins when material is taken up into plasma membrane caveolae which then pinch off to form endocytic caveolar carriers containing the virus. The caveolar carriers then deliver their viral content to early endosomes, and the process ends when viral nucleic acid is released into the host cytoplasm by its injection through the endosome membrane." [GOC:jl, VZ:976]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413813-comment: This term was made obsolete because it doesn't represent a genuine process. The term injection is mostly used for prokaryotic viruses where there is no endocytosis.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413822-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:413823:def: "The directed movement of the viral genome or viral particle within the host cell cytoplasm along host microtubules. Microtubule-dependent transport involves motor proteins like dynein and kinesin and is mostly used by viruses that target their genomes to the nucleus." [VZ:983]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413824-subset: virus_checked
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413830-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:413831:def: "The directed movement of a virus, or part of a virus, within the host cell cytoplasm via the host's actin filaments. Actin-dependent transport is induced by viral proteins that interact with actin and/or host cell motor proteins like myosins or that promotes actin polymerization/depolymerization reactions." [UniProtKB-KW:KW-1178, VZ:991]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413832-subset: virus_checked
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413932-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:413933:def: "A process by which a virus establishes a latent state within its host as an episome, where the viral genome remains silent in the cytoplasm or nucleus as a circular structure." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413934-synonym: "establishment of circular plasmid latency" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413942-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:413943:def: "A process by which a virus establishes a latent state within its host as an episome, where the viral genome remains silent in the cytoplasm or nucleus as linear structure." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413944-synonym: "establishment of latency as a linear plasmid" EXACT []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413966-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:413967:def: "OBSOLETE. The uptake of a virus into a host cell that begins by invagination of a specific region of the host cell plasma membrane around the bound virus to form a clathrin-coated pit, which then pinches off to form a clathrin-coated endocytic vesicles containing the virus. The vesicle then delivers its viral content to early endosomes, and the process ends when the viral nucleic acid is released into the host cytoplasm by its injection through the endosome membrane." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413968-comment: This term was made obsolete because it doesn't represent a genuine process. The term injection is mostly used for prokaryotic viruses where there is no endocytosis.
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413992-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:413993:def: "A process by which a virus establishes a latent state within its host as an episome, where the viral genome remains silent in the cytoplasm or nucleus as a distinct genetic entity." [GOC:jl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-413994-synonym: "establishment as a plasmid prophage" NARROW []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-415337-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:415338:def: "Any process that modulates the rate, frequency or extent of fertilization. Fertilization is the union of gametes of opposite sexes during the process of sexual reproduction to form a zygote. It involves the fusion of the gametic nuclei (karyogamy) and cytoplasm (plasmogamy)." [GOC:DHL, PMID:20478994]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-415339-is_a: GO:0043900 ! regulation of multi-organism process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-415879-synonym: "TVN" EXACT []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:415880:is_a: GO:0033655 ! host cell cytoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-415881-is_a: GO:0043264 ! extracellular non-membrane-bounded organelle
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-417700-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:417701:def: "A process in which the extent of muscle contraction is reduced. Muscle relaxation can involve a number of processes including the removal of calcium from the cytoplasm to the sarcoplasmic reticulum lumen through the action of Ca2+ ATPases. In some muscles, calcium-independent pathways also play a role in muscle relaxation by decreasing the phosphorylation state of myosin light chain." [GOC:BHF, GOC:rl, PMID:19996365]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-417702-is_a: GO:0003012 ! muscle system process
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-417707-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:417708:def: "A process in which the extent of skeletal muscle tissue contraction is reduced. Muscle relaxation involves the removal of calcium from the cytoplasm to the sarcoplasmic reticulum lumen through the action of Ca2+ ATPases." [GOC:BHF, GOC:rl]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-417709-is_a: GO:0090075 ! relaxation of muscle
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-421924-is_a: GO:0017053 ! transcriptional repressor complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:421925:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-421926-
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-422172-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:422173:def: "The process in which nucleated precursor cells lose their nucleus as part of sieve element differentiation. The nuclear contents are released and degraded in the cytoplasm at the same time as other organelles are rearranged and the cytosol is degraded." [GOC:tb, PMID:25081480]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-422174-is_a: GO:0090601 ! enucleation
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-422568-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:422569:def: "The region of the cytoplasm located at the apical side of the cell. Used in reference to animal polarized epithelial cells." [PMID:17494872]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-422570-is_a: GO:0044444 ! cytoplasmic part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-422576-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:422577:def: "The region of the cytoplasm located at the basolateral side of the cell. Used in reference to animal polarized epithelial cells." [PMID:17494872]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-422578-is_a: GO:0044444 ! cytoplasmic part
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-422583-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:422584:def: "Tubulo-vesicular structure located in the apical cytoplasm that participates in apical cargo recycling in polarized epithelial cells." [PMID:12669082, PMID:16394106, PMID:17494872, PMID:21170358, PMID:9405315]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-422585-is_a: GO:0055037 ! recycling endosome
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-422591-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:422592:def: "Tubulo-vesicular structure located in the basolateral cytoplasm that participates in basolateral cargo recycling in polarized epithelial cells." [PMID:11389442, PMID:16394106, PMID:17494872, PMID:21170358, PMID:9405315]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-422593-is_a: GO:0055037 ! recycling endosome
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-423423-def: "All of the contents of a cilium, excluding the plasma membrane surrounding the cilium." [GOC:BHF, GOC:cilia, GOC:dos, PMID:17895364]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:423424:comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. Also, researchers consider the composition of both the plasm and the membrane of the cilium to be detectably different from that in the non-ciliary cytosol and plasma membrane (e.g. in terms of calcium ion concentration, membrane lipid composition, and more). For this reason, the term "ciliary plasm" is not linked to "cytoplasm".
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-423425-synonym: "cilial cytoplasm" RELATED []
##############################################
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-423944-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:423945:def: "A protein complex that consists of two interferon regulatory proteins (IRFs); may be homodimeric or heterodimeric. The activation of a latent closed conformation of IRF in the cytoplasm is triggered by phosphorylation of Ser/Thr residues in a C-terminal region. Phosphorylation stimulates the C-terminal autoinhibitory domain to attain a highly extended conformation triggering dimerization through extensive contacts to a second subunit." [GOC:cna, PMID:20043992]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-423946-synonym: "IRF complex" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-424961-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:424962:def: "A vesicle containing parts of a dying cell. Apoptotic bodies can be formed during the execution phase of the apoptotic process, when the cell's cytoskeleton breaks up and causes the membrane to bulge outward. These bulges may separate from the cell, taking a portion of cytoplasm with them, to become apoptotic bodies. These are then engulfed by phagocytic cells, and their components recycled. Apoptotic bodies may range in size from 0.8 to 5um." [GOC:mtg_apoptosis, GOC:vesicles, http://en.wikipedia.org/wiki/Apoptosis, http://en.wikipedia.org/wiki/Bleb_(cell_biology), PMID:15242875, PMID:24223256]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-424963-synonym: "apoptotic bleb" RELATED [GOC:vesicles]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-426454-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:426455:def: "A heterooligomeric protein complex that spans the bacterial periplasm and enables the secretion of adhesin proteins in Gram-negative bacteria. In Citrobacter rodentium, Salmonella enterica and Escherichia coli, the TAM complex consists of an Omp85-family protein, TamA, in the outer membrane and TamB in the inner membrane." [GOC:am, PMID:22466966]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-426456-synonym: "translocation and assembly module protein complex" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-426923-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:426924:def: "Cellular inclusion consisting of circular areas filled with fine slender filaments about 10 nanometers in diameter, delimited by a wall of varying complexity (either a single continuous membrane or a tubular network consisting of a fine filamentous material giving the wall a honeycomb appearance). Fibrillary inclusions are found in the cytoplasm of giant cells of Dieters in the lateral vestibular nucleus of the rat; similar structures have been described in the ventral cochlear nucleus, spinal cord, and substantia nigra." [NIF_Subcellular:sao967812059]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-426925-xref: NIF_Subcellular:sao967812059
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-427015-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:427016:def: "Intracellular mass of paired, helically wound protein filaments (also called PHF) lying in the cytoplasm of neuronal cell bodies and neuritic cell processes. Neurofibrillary tangles contain an abnormally phosphorylated form of a microtubule-associated protein, tau. The shape of these inclusions may resemble a flame or a star." [NIF_Subcellular:nlx_subcell_20090201, NIF_Subcellular:nlx_subcell_20090202, NIF_Subcellular:sao2409833926]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-427017-comment: Neurofibrillary tangles have been found in aging population; their formation is increased in Alzheimer's disease patients (and in other neurological diseases) compared to normal controls (see PMID:848276 and PMID:8584267).
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-427260-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:427261:def: "Electron dense projection extending from the cytomatrix into the cytoplasm on which synaptic vesicles are tethered." [NIF_Subcellular:sao494258938, PMID:15381754]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-427262-synonym: "active zone dense projection" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-428564-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:428565:def: "Trilaminar structure extending perpendicularly into the cytoplasm along the length of ventral disc microtubules in Giardia species (trophozoite stage). Constituents of dorsal microribbons (also called dorsal ribbons or microribbons) include alpha-coiled-helix proteins approximately 29 to 38 kDa in size. These proteins line the edges of the microribbons but are not found in microtubules. Tubulins are not found in microribbons." [GOC:giardia, PMID:11432808]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-428566-comment: Due to the asymmetric nature of the Giardia trophozoite, this term is defined spatially as the trophozoite is viewed from the dorsal side, with the two nuclei dorsal to the ventral disc, and the ventral disc toward the anterior.
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-428608-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:428609:def: "A small amount of cytoplasm surrounded by a cell membrane that is generally retained in spermatozoa after spermiogenesis, when the majority of the cytoplasm is phagocytosed by Sertoli cells to produce \"residual bodies\". Initially, the droplet is located at the neck just behind the head of an elongated spermatid. During epididymal transit, the cytoplasmic droplet migrates caudally to the annulus at the end of the midpiece; the exact position and time varies by species. The cytoplasmic droplet consists of lipids, lipoproteins, RNAs, a variety of hydrolytic enzymes, receptors, ion channels, and Golgi-derived vesicles. The droplet may be involved in regulatory volume loss (RVD) at ejaculation, and in most species, though not in humans, the cytoplasmic droplet is lost at ejaculation. Note that the cytoplasmic droplet is distinct from \"excessive residual cytoplasm\" that sometimes remains in epididymal spermatozoa, particularly when spermiogenesis has been disrupted." [GOC:krc, GOC:vesicles, PMID:12672117, PMID:21076437, PMID:23159014]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-428610-synonym: "sperm residual cytoplasm" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-429322-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:429323:def: "The cytoplasm of a secondary organism with which the first organism is interacting." [GOC:aa, PMID:23469034]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-429324-is_a: GO:0033643 ! host cell part
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-430706-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:430707:def: "Any process in which a protein complex is maintained in a specific location within the cytoplasm and is prevented from moving elsewhere." [GOC:dos]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-430708-is_a: GO:0098544 ! maintenance of protein complex location
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-431107-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:431108:def: "The leaflet the apical region of the plasma membrane that faces away from the cytoplasm and any proteins embedded or anchored in it or attached to its surface." [GOC:ab, GOC:dos]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-431109-is_a: GO:0009897 ! external side of plasma membrane
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-431123-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:431124:def: "A cup shaped specialization of the cytoskeleton that forms a thin layer located just below the apical mass of mature mucin secretory granules in the cytoplasm of goblet cells of the intestinal epithelium. It consists of an orderly network of intermediate filaments and microtubules. Microtubules are arranged vertically, like barrel staves, along the inner aspect of the theta. Intermediate filaments form two networks: an inner, basketlike network and an outer series of circumferential bundles resembling the hoops of a barrel." [PMID:6541604]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-431125-is_a: GO:0043232 ! intracellular non-membrane-bounded organelle
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-432801-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:432802:def: "The macroautophagy process in which a region of cytoplasm containing an intracellular pathogen or some part of an intracellular pathogen (e.g. viral capsid) is enclosed in a double membrane bound autophagosome, which then fuses with the lysosome leading to degradation of the contents." [GOC:autophagy, GOC:pad, GOC:PARL, PMID:19802565, PMID:20159618, PMID:25497060]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:432803:comment: While making xenophagy a subclass of (macro)autophagy may seem to directly contradict the definition of autophagy (literally self eating), it is clear that the same pathway is involved as in macroautophagy that doesn't target foreign material: formation of double-membrane-bounded autophagosomes that enclose a region of cytoplasm for degradation.
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-432804-is_a: GO:0061912 ! selective autophagy
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-433163-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:433164:def: "A specialized region of the plasma membrane and underlying cytoplasm which surround the the active zone, into which synaptic vesicle membranes are recycled following exocytosis. It is especially enriched in endocytic proteins following intense activity." [PMID:17455288]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-433165-comment: May be identical to periactive zone?
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-433351-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:433352:def: "The lipid bilayer surrounding a lytic vacuole and separating its contents from the cytoplasm of the cell." [GOC:dos]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-433353-is_a: GO:0005774 ! vacuolar membrane
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-434764-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:434765:def: "Ejection by a non-enveloped prokaryotic virus of its genome into the host cytoplasm via a contractile tail ejection system consisting of a baseplate, a central tube and an external contractile sheath. Upon binding to the host cell surface, the baseplate changes its conformation and triggers sheath contraction, driving the rigid internal tail tube through the cell envelope." [GOC:dos, PMID:26283379, VZ:3950]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-434766-synonym: "viral contractile tail ejection system" EXACT [VZ:3950]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-434773-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:434774:def: "Ejection by a non-enveloped prokaryotic virus of its genome into the host cytoplasm via a long, flexible tail ejection system consisting a baseplate, a central tube and a terminator complex which attaches the tail to the phage capsid. Upon binding to the host cell surface, the baseplate changes its conformation and triggers genome ejection into the host cell cytoplasm." [GOC:dos, PMID:22297512, VZ:3952]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-434775-synonym: "viral long flexible tail ejection system" EXACT [VZ:3952]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-434783-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:434784:def: "Ejection by a non-enveloped prokaryotic virus of its genome into the host cytoplasm via a short tail ejection system consisting a central tube, the connector which attaches the tail to the phage capsid and releases inner core proteins. Upon binding to the host cell surface, the phage displays a tube-like extension of its short tail that penetrates both host membranes. This tail extension comes from the release of viral core proteins with channel forming properties." [GOC:dos, PMID:22297513, VZ:3954]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-434785-synonym: "viral short tail ejection system" EXACT [VZ:3954]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-434838-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:434839:def: "The entry of a non-enveloped virus into the cytoplasm of a host prokaryotic cell, following fusion with the outer membrane, via permeabilization of the plasma (inner) membrane. In the case of some double stranded RNA viruses of prokaryotes this occurs via interaction of a membrane-interacting component of the capsid, leading to depolarization an permeabilization of the plasma membrane." [PMID:15795287, PMID:20427561, VZ:985]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-434840-synonym: "viral penetration via permeabilization of host membrane" BROAD [vz:985]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-435445-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:435446:def: "A protein complex that is invovled in positioning of the lysosome within the cytoplasm and which is composed of BLOC1S1, BLOC1S2, BORCS5, BORCS6, BORCS7, BORCS8, KXD1 and SNAPIN. The BORC complex recruits ARL8 at the cytosolic face of lysosomes and couples them to microtubule plus-end-directed kinesin motors." [GOC:dos, GOC:li, PMID:25898167]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-435447-is_a: GO:0032991 ! protein-containing complex
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-436366-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:436367:def: "The directed movement of Zn2+ ions from the cytoplasm into the lumen of a cytoplasmic vesicle." [PMID:9990090]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-436368-subset: goslim_synapse
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-437167-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:437168:def: "Any (proper) part of the cytoplasm of a single cell of sufficient size to still be considered cytoplasm\"" [GOC:dos]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-437169-is_a: GO:0005737 ! cytoplasm
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-448826-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:448827:def: "A cytoskeletal structure composed of actin filaments, myosin, and myosin-associated proteins that forms beneath the plasma membrane of many cells, including animal cells and yeast cells, in a plane perpendicular to the axis of the mitotic spindle, i.e. the cell division plane. Ring contraction is associated with centripetal growth of the membrane that divides the cytoplasm of the two future daughter cells. In animal cells, the mitotic contractile ring is located inside the plasma membrane at the location of the cleavage furrow. In budding fungal cells, e.g. mitotic S. cerevisiae cells, the mitotic contractile ring forms beneath the plasma membrane at the mother-bud neck before mitosis." [GOC:vw, PMID:27505246]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-448828-is_a: GO:0005826 ! actomyosin contractile ring
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-448833-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:448834:def: "A cytoskeletal structure composed of actin filaments, myosin, and myosin-associated proteins that forms beneath the plasma membrane of many cells, including animal cells and yeast cells, in a plane perpendicular to the axis of the meiotic spindle, i.e. the cell division plane. Ring contraction is associated with centripetal growth of the membrane that divides the cytoplasm of the two future daughter cells. In animal cells, the meiotic contractile ring is located inside the plasma membrane at the location of the cleavage furrow. In fungal cells, the meiotic contractile ring forms beneath the plasma membrane of the prospore envelope in preparation for completing cytokinesis." [GOC:vw, PMID:22526418]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-448835-is_a: GO:0005826 ! actomyosin contractile ring
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-449830-def: "A pathway targeting soluble cytosolic proteins to the vacuole lumen. It uses a selective autophagy receptor protein Nbr1, which is an ortholog of mammalian NBR1, and is remotely related to S. cerevisiae Cvt pathway receptor protein Atg19. Similar to the Cvt pathway, the cargos transported by this pathway are hydrolases, which presumably contribute to the hydrolytic activities in the vacuole lumen. Different from the Cvt pathway, this pathway does not require the macroautophagy machinery, but instead relies on the ESCRT machinery for cargo sequestration. This pathway is observed in the fission yeast S. pombe." [PMID:26365378]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:449831:synonym: "cytoplasm to vacuole targeting" BROAD []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-449832-synonym: "cytoplasm-to-vacuole targeting" BROAD []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-449839-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:449840:def: "A protein complex containing members of the Like-Sm family of proteins, which includes both the Sm proteins and the Lsm proteins, and which generally form hexameric or heptameric ring structures which bind to RNA. While some of these ring complexes may form independently of RNA, many only form in association with their target RNA. In addition to Lsm-family proteins, many of these complexes contain additional protein members. Members of this family of complexes include the snRNPs which comprise the majority of the spliceosome. Others are involved in the 5' to 3' degradation pathways of mRNAs in the cytoplasm and of unspliced transcripts in the nucleus, as well as other diverse roles." [GOC:bhm, GOC:krc, PMID:19121818, PMID:27627834]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-449841-is_a: GO:0032991 ! protein-containing complex
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-450782-alt_id: GO:0090631
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:450783:def: "Carries substances between the nucleus and the cytoplasm of a cell by moving along with the target protein." [GOC:pg]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-450784-comment: New term created for https://github.com/geneontology/go-ontology/issues/14336.
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-483053-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:483054:def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the movement of proteins from the cytoplasm into the nucleus, and that occurs as a response to the mitotic cell cycle spindle assembly checkpoint. In S. cerevisiae, this process involves inhibition of the karyopherin/importin Kap121p (also known as Pse1p), which acts as the specific nuclear import receptor for several proteins, including Glc7p. Glc7p functions in opposition to key spindle assembly checkpoint protein Aurora kinase (Ipl1p)." [GOC:dgf, GOC:TermGenie, PMID:23177738]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-483055-synonym: "Kap121p transport inhibitory pathway" RELATED []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-501235-synonym: "spindle pole body duplication associated with nuclear envelope involved in mitotic cell cycle" EXACT [GOC:TermGenie]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:501236:synonym: "spindle pole body duplication in cytoplasm involved in mitotic cell cycle" EXACT [GOC:TermGenie]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-501237-synonym: "spindle pole body duplication involved in mitotic cell cycle" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-518686-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:518687:def: "Any cytoplasm that is part of a axon." [GO_REF:0000064, GOC:TermGenie, PMID:18667152]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-518688-synonym: "axoplasm" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-522118-synonym: "cell periphery of leading edge of cell" RELATED [GOC:TermGenie]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:522119:synonym: "peripheral cytoplasm of cell leading edge" RELATED [GOC:TermGenie]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:522120:synonym: "peripheral cytoplasm of front of cell" RELATED [GOC:TermGenie]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:522121:synonym: "peripheral cytoplasm of leading edge of cell" RELATED [GOC:TermGenie]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-522122-is_a: GO:0099738 ! cell cortex region
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-551166-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:551167:def: "The directed movement of an RNA polymerase III complex from the cytoplasm to the nucleus." [GOC:mcc, PMID:23267056]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-551168-synonym: "DNA-directed RNA polymerase III complex import into nucleus" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-551501-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:551502:def: "Protein complex facilitating ATP-dependent maltose transport through inner cell membrane (periplasm to cytoplasm) in Gram-negative bacteria. In E. coli the system is composed of a periplasmic maltose-binding protein (MBP), two integral membrane proteins, MalF and MalG, and two copies of the cytoplasmic ATP-binding cassette MalK." [PMID:18033289]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-551503-synonym: "maltose ABC transporter complex" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-552288-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:552289:def: "A protein complex consisting of the pentameric maltose transporter complex bound to two enzyme IIA (EIIA) molecules. EIIA is a component of the glucose-specific phosphotransferase system that inhibits maltose transport from the periplasm to the cytoplasm. When EIIA-bound, the maltose transporter remains in the open, inward-facing conformation, which prevents binding of maltose-loaded maltose binding protein (MBP) to the transporter." [GOC:bf, GOC:bhm, PMID:23770568]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-552290-synonym: "EIIA(Glc)-MalFGK2 complex" EXACT [PMID:23770568]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-552456-def: "A process in which a protein is transported to, or maintained in, a location within the nucleoplasm." [GOC:mah, PMID:22918952]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:552457:comment: Merged with nucleolus to nucleoplasm transport, see https://github.com/geneontology/go-ontology/issues/14690
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:552458:synonym: "nucleolus to nucleoplasm transport" RELATED []
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-552459-synonym: "protein localisation to nucleoplasm" EXACT [GOC:mah]
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-552627-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:552628:def: "Protein complex facilitating ATP-dependent cobalamin (vitamin B12) transport through inner cell membrane (periplasm to cytoplasm) in Gram-negative bacteria. In E. coli the system is composed of a periplasmic cobalamin-binding protein (BtuF), an integral membrane homodimer, BtuC, and a cytoplasmic ATP-binding homodimer BtuD." [GOC:bhm, PMID:22569249]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-552629-synonym: "BtuCDF complex" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-552683-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:552684:def: "An ATP-binding cassette (ABC) transporter complex that is capable of methionine-importing activity. An example is the bacterial MetNIQ methionine transporter, that consists of the dimeric ATPase subunit MetN located at the cytoplasmic side of the plasma membrane and the dimeric transmembrane subunit MetI. MetQ is regarded as the periplasmic methionine-binding chaperon subunit, and is capable of transporting methionine from the periplasm into the cytoplasm in an ATP-dependent manner." [GOC:bhm, PMID:22095702]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-552685-synonym: "ATP-binding cassette (ABC) methionine importer complex" EXACT []
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-553045-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:553046:def: "The directed movement of the proteasome core complex (AKA core particle (CP)) from the cytoplasm into the nucleus." [GOC:dos, GOC:rb, PMID:23982732]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-553047-is_a: GO:0031503 ! protein-containing complex localization
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-553670-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:553671:def: "A collagen homotrimer of alpha1(XXI) chains; type XXI collagen triple helices found in the extracellular matrix component of blood vessel walls and in the cytoplasm of cultured human aortic smooth muscle." [GOC:bhm, PMID:17876790]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-553672-xref: IntAct:EBI-2529143
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-553945-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:553946:def: "The movement of substances between cells via gap junctions. A gap junction is a fine cytoplasmic channel, found in animal cells, that connects the cytoplasm of one cell to that of an adjacent cell, allowing ions and other molecules to pass freely between the two cells." [GOC:hjd, PMID:14506308, PMID:23261543, Wikipedia:Gap_junction]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-553947-is_a: GO:0010496 ! intercellular transport
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-554284-namespace: biological_process
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:554285:def: "Advancement of the mitotic cleavage furrow from the outside of the cell inward towards the center of the cell. The cleavage furrow acts as a 'purse string' which draws tight to separate daughter cells during mitotic cytokinesis and partition the cytoplasm between the two daughter cells. The furrow ingresses until a cytoplasmic bridge is formed." [GOC:kmv, PMID:12707312]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-554286-is_a: GO:0036090 ! cleavage furrow ingression
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-556095-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:556096:def: "A protein complex required for prokaryotic cell division (FtsZ-dependent cytokinesis). Part of the divisome. Assembled independently of the other divisome components in the cytoplasm prior to transport to the cell septum. In E. coli consists of FtsB, FtsL and FtsQ." [GOC:bhm, PMID:15165235, PMID:21784946]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-556097-comment: An example of this is FtsB in E. coli (P0A6S5) in PMID:15165235 (inferred from physical interaction).
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-556105-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:556106:def: "A protein complex required for prokaryotic cell division (FtsZ-dependent cytokinesis). Part of the divisome. Assembled independently of the other divisome components in the cytoplasm prior to transport to the cell septum. In E. coli consists of FtsB and FtsL." [GOC:bhm, PMID:15165235, PMID:21784946]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-556107-comment: An example of this is FtsB in E. coli (P0A6S5) in PMID:15165235 (inferred from physical interaction).
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-556449-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:556450:def: "OBSOLETE. A protein complex consisting of RseA, RseB and RpoE. It form the inactive form of the sigma-E transcription factor. In response to stress, outer membrane proteins accumulate in the periplasm and activate cleavage of RseA periplasmic domain by DegS, triggering a proteolytic cascade that frees sigma-E to activate gene expression. RseB binding to RseA prevents activated DegS from cleaving RseA. Sigma-E-mediated envelope stress response is the major pathway to ensure homeostasis in the envelope compartment of the cell." [GOC:bhm, PMID:20190044]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-556451-comment: This term was obsoleted at the TermGenie Gatekeeper stage.
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-556501-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:556502:def: "A type of punctate focus localized to the perinuclear region of germline cytoplasm in C. elegans. Mutator foci are required for RNA interference (RNAi) and serve as sites of small inhibitory RNA (siRNA) amplification. As such, proteins that localize to mutator foci include RNA-directed RNA polymerases (RdRPs) and beta-nucleotidyltransferases. Mutator foci are distinct from, but adjacent to or partially overlap, P granules." [PMID:22713602, PMID:25635455]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-556503-xref: GOC:kmv
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-557232-is_a: GO:0032991 ! protein-containing complex
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:557233:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-557234-
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-557321-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:557322:def: "Cytoplasm situated in close proximity to a nuclear pore complex." [PMID:9398662]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-557323-is_a: GO:0048471 ! perinuclear region of cytoplasm
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-557811-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:557812:def: "The leaflet of the plasma membrane that faces the cytoplasm and any proteins embedded or anchored in it or attached to its surface surrounding a dendritic spine." [PMID:9275233]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-557813-is_a: GO:0009898 ! cytoplasmic side of plasma membrane
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-557838-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:557839:def: "Cytoplasm situated near, or occurring around, a phagosome." [PMID:18250451]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-557840-is_a: GO:0044444 ! cytoplasmic part
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-558224-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:558225:def: "Nucleoplasm situated in close proximity and peripheral to a nuclear pore complex." [PMID:10633080]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:558226:is_a: GO:0044451 ! nucleoplasm part
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-558227-
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-558932-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:558933:def: "A small, flexible, finger-like projection of cytoplasm containing an array of microtubles and located near the flagellar pores in some photosynthetic as well as nonphotosynthetic dinoflagellate species. Its functions are not fully understood, but it has been associated with feeding behavior (phagotrophy)." [GOC:at, http://en.wikipedia.org/wiki/Dinoflagellate, http://species-identification.org/index.php, PMID:1480107]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-558934-comment: The term name refers to a taxonomic group to make the label unique with respect to similarly-named anatomical structures.
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-559038-namespace: cellular_component
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:559039:def: "The cytoplasm of an ovum." [PMID:19022436]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-559040-is_a: GO:0005737 ! cytoplasm
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tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-571975-def: "Any process that modulates the frequency, rate or extent of protein localization by the Cvt pathway." [GOC:obol]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo:571976:synonym: "regulation of cytoplasm to vacuole targeting" EXACT [GOC:obol]
tnseq-transit-3.2.0/src/pytransit/data/gene_ontology.1_2.3-11-18.obo-571977-synonym: "regulation of cytoplasm-to-vacuole targeting" EXACT [GOC:obol]
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tnseq-transit-3.2.0/debian/createmanpages-4-
tnseq-transit-3.2.0/debian/createmanpages:5:VERSION=`dpkg-parsechangelog | awk '/^Version:/ {print $2}' | sed -e 's/^[0-9]*://' -e 's/-.*//' -e 's/[+~]dfsg$//'`
tnseq-transit-3.2.0/debian/createmanpages-6-NAME=`grep "^Description:" debian/control | sed 's/^Description: *//' | head -n1`