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ONTOLOGY REPORT - ANNOTATIONS


Term:lytic vacuole organization
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Accession:GO:0080171 term browser browse the term
Definition:A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a lytic vacuole.
Synonyms:exact_synonym: lytic vacuole organisation
 narrow_synonym: lytic vacuolar assembly
 related_synonym: lytic vacuole biogenesis;   lytic vacuole organization and biogenesis


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lysosomal lumen acidification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atp6ap2 ATPase H+ transporting accessory protein 2 ISO (PMID:32276428) UniProt PMID:32276428 NCBI chrNW_004955565:2,006,154...2,029,921 JBrowse link
G Ccdc115 coiled-coil domain containing 115 ISO (PMID:28296633) UniProtKB PMID:28296633 NCBI chrNW_004955459:25,649...30,215 JBrowse link
G Cln3 CLN3 lysosomal/endosomal transmembrane protein, battenin ISO (PMID:11722572) UniProtKB PMID:11722572 NCBI chrNW_004955493:6,696,520...6,707,849 JBrowse link
G Cln5 CLN5 intracellular trafficking protein ISO (PMID:11722572) UniProtKB PMID:11722572 NCBI chrNW_004955404:30,229,632...30,235,677 JBrowse link
G Cln6 CLN6 transmembrane ER protein ISO (PMID:11722572) UniProtKB PMID:11722572 NCBI chrNW_004955450:7,876,572...7,885,305 JBrowse link
G Grn granulin precursor ISO (PMID:28073925) UniProt PMID:28073925 NCBI chrNW_004955451:17,368,600...17,371,981 JBrowse link
G Ppt1 palmitoyl-protein thioesterase 1 ISO (PMID:11722572) UniProtKB PMID:11722572 NCBI chrNW_004955452:17,518,345...17,549,112 JBrowse link
G Snapin SNAP associated protein ISO (MGI:MGI:4879078|PMID:20920792) MGI PMID:20920792 MGI:MGI:4879078 NCBI chrNW_004955545:306,546...308,229 JBrowse link
G Tmem199 transmembrane protein 199 ISO (PMID:28296633) UniProtKB PMID:28296633 NCBI chrNW_004955481:4,772,394...4,776,524 JBrowse link
G Tmem9 transmembrane protein 9 ISO (PMID:30374053) UniProt PMID:30374053 NCBI chrNW_004955406:37,279,885...37,299,196 JBrowse link
lysosomal lumen pH elevation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cln3 CLN3 lysosomal/endosomal transmembrane protein, battenin ISO (PMID:10924275) UniProtKB PMID:10924275 NCBI chrNW_004955493:6,696,520...6,707,849 JBrowse link
lysosomal membrane organization term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Arf1 ADP ribosylation factor 1 ISO RGD PMID:9538255 RGD:9684948 NCBI chrNW_004955581:319,942...335,112 JBrowse link
lysosome organization term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Abca1 ATP binding cassette subfamily A member 1 ISO (PMID:15163665) BHF-UCL PMID:15163665 NCBI chrNW_004955419:21,553,863...21,681,626 JBrowse link
G Acp2 acid phosphatase 2, lysosomal ISO (MGI:MGI:3522374|PMID:15604265)
(MGI:MGI:894905|PMID:9228031)
MGI PMID:9228031, PMID:15604265 MGI:MGI:3522374, MGI:MGI:894905 NCBI chrNW_004955422:954,108...961,522 JBrowse link
G Aktip AKT interacting protein ISO (PMID:18799622) UniProtKB PMID:18799622 NCBI chrNW_004955433:11,237,717...11,248,638 JBrowse link
G Ap3b1 adaptor related protein complex 3 subunit beta 1 ISO (MGI:MGI:1330543|PMID:9931340), (MGI:MGI:6415001|PMID:30786955) MGI PMID:9931340, PMID:30786955 MGI:MGI:1330543, MGI:MGI:6415001 NCBI chrNW_004955425:22,792,616...23,051,509 JBrowse link
G Becn1 beclin 1 ISO (MGI:MGI:3801567|PMID:18497889) MGI PMID:18497889 MGI:MGI:3801567 NCBI chrNW_004955451:16,616,595...16,625,731 JBrowse link
G Cln3 CLN3 lysosomal/endosomal transmembrane protein, battenin ISO (MGI:MGI:1337525|PMID:10191119), (MGI:MGI:1346962|PMID:10527801)
(MGI:MGI:3527911|PMID:15588329)
(MGI:MGI:1343910|PMID:10440905)
MGI PMID:10191119, PMID:10440905, PMID:10527801, PMID:15588329 MGI:MGI:1337525, MGI:MGI:1343910, MGI:MGI:1346962, MGI:MGI:3527911 NCBI chrNW_004955493:6,696,520...6,707,849 JBrowse link
G Cln5 CLN5 intracellular trafficking protein ISO (MGI:MGI:3512689|PMID:15459177) MGI PMID:15459177 MGI:MGI:3512689 NCBI chrNW_004955404:30,229,632...30,235,677 JBrowse link
G Cln6 CLN6 transmembrane ER protein ISO (MGI:MGI:1203267|PMID:9600738), (MGI:MGI:5751614|PMID:26681805) MGI PMID:9600738, PMID:26681805 MGI:MGI:1203267, MGI:MGI:5751614 NCBI chrNW_004955450:7,876,572...7,885,305 JBrowse link
G Cln8 CLN8 transmembrane ER and ERGIC protein ISO (MGI:MGI:1333651|PMID:10087069), (MGI:MGI:65559|PMID:8144516), (MGI:MGI:66707|PMID:8160780), (MGI:MGI:71226|PMID:7613514) MGI PMID:7613514, PMID:8144516, PMID:8160780, PMID:10087069 MGI:MGI:1333651, MGI:MGI:65559, MGI:MGI:66707, MGI:MGI:71226 NCBI chrNW_004955403:57,926,711...57,938,698 JBrowse link
G Clvs1 clavesin 1 ISO PMID:19651769 UniProt PMID:19651769 RGD:8553526 NCBI chrNW_004955444:17,319,905...17,515,397 JBrowse link
G Clvs2 clavesin 2 ISO PMID:19651769 UniProt PMID:19651769 RGD:8553526 NCBI chrNW_004955436:4,758,749...4,823,383 JBrowse link
G Fam160a2 family with sequence similarity 160 member A2 ISO (PMID:18799622) UniProtKB PMID:18799622 NCBI chrNW_004955414:21,954,103...21,977,877 JBrowse link
G Gaa glucosidase alpha, acid ISO (PMID:7717400)
(MGI:MGI:1195358|PMID:9384603), (MGI:MGI:1346721|PMID:10547605), (MGI:MGI:2136118|PMID:11328962), (MGI:MGI:3664400|PMID:12115977)
(MGI:MGI:1275872|PMID:9668092), (MGI:MGI:3618942|PMID:15169761)
BHF-UCL
MGI
PMID:7717400, PMID:9384603, PMID:9668092, PMID:10547605, PMID:11328962, PMID:12115977, PMID:15169761 MGI:MGI:1195358, MGI:MGI:1275872, MGI:MGI:1346721, MGI:MGI:2136118, MGI:MGI:3618942, MGI:MGI:3664400 NCBI chrNW_004955506:2,764,959...2,783,231 JBrowse link
G Gba glucosylceramidase beta ISO (PMID:27378698)
(MGI:MGI:5817293|PMID:27378698)
UniProt PMID:27378698 MGI:MGI:5817293 NCBI chrNW_004955545:1,682,097...1,689,373 JBrowse link
G Gnptab N-acetylglucosamine-1-phosphate transferase subunits alpha and beta ISO (PMID:21719679) UniProtKB PMID:21719679 NCBI chrNW_004955405:37,107,902...37,136,993 JBrowse link
G Grn granulin precursor ISO (MGI:MGI:6274951|PMID:27789271) UniProt PMID:27789271 MGI:MGI:6274951 NCBI chrNW_004955451:17,368,600...17,371,981 JBrowse link
G Hexa hexosaminidase subunit alpha ISO (MGI:MGI:83770|PMID:8896570), (MGI:MGI:894634|PMID:9184660)
(MGI:MGI:1097747|PMID:9302266), (MGI:MGI:1271008|PMID:9645704), (MGI:MGI:1352198|PMID:10591619), (MGI:MGI:3033296|PMID:14972652)
(MGI:MGI:77946|PMID:8747922)
(MGI:MGI:69059|PMID:7937929), (MGI:MGI:86923|PMID:9103204)
MGI PMID:7937929, PMID:8747922, PMID:8896570, PMID:9103204, PMID:9184660, PMID:9302266, PMID:9645704, PMID:10591619, PMID:14972652 MGI:MGI:1097747, MGI:MGI:1271008, MGI:MGI:1352198, MGI:MGI:3033296, MGI:MGI:69059, MGI:MGI:77946, MGI:MGI:83770, MGI:MGI:86923, MGI:MGI:894634 NCBI chrNW_004955450:4,790,342...4,806,862 JBrowse link
G Hexb hexosaminidase subunit beta ISO (MGI:MGI:1271008|PMID:9645704), (MGI:MGI:78473|PMID:8789434)
(MGI:MGI:83770|PMID:8896570), (MGI:MGI:894634|PMID:9184660)
MGI PMID:8789434, PMID:8896570, PMID:9184660, PMID:9645704 MGI:MGI:1271008, MGI:MGI:78473, MGI:MGI:83770, MGI:MGI:894634 NCBI chrNW_004955425:25,942,341...25,961,312 JBrowse link
G Hook1 hook microtubule tethering protein 1 ISO (PMID:18799622) UniProtKB PMID:18799622 NCBI chrNW_004955464:47,895...129,414 JBrowse link
G Hook2 hook microtubule tethering protein 2 ISO (PMID:18799622) UniProtKB PMID:18799622 NCBI chrNW_004955415:31,855,183...31,865,413 JBrowse link
G Hook3 hook microtubule tethering protein 3 ISO (PMID:18799622) UniProtKB PMID:18799622 NCBI chrNW_004955457:13,149,013...13,249,524 JBrowse link
G Hps1 HPS1 biogenesis of lysosomal organelles complex 3 subunit 1 ISO (MGI:MGI:6415001|PMID:30786955) MGI PMID:30786955 MGI:MGI:6415001 NCBI chrNW_004955507:4,408,428...4,433,219 JBrowse link
G Hps4 HPS4 biogenesis of lysosomal organelles complex 3 subunit 2 ISO (PMID:12663659) UniProtKB PMID:12663659 NCBI chrNW_004955455:1,048,946...1,076,097 JBrowse link
G Idua alpha-L-iduronidase ISO (MGI:MGI:4414887|PMID:19751987)
(MGI:MGI:86916|PMID:9097952)
MGI PMID:9097952, PMID:19751987 MGI:MGI:4414887, MGI:MGI:86916 NCBI chrNW_004955514:474,830...488,007 JBrowse link
G Lamtor1 late endosomal/lysosomal adaptor, MAPK and MTOR activator 1 ISO (MGI:MGI:4887551|PMID:19177150) UniProtKB PMID:19177150 MGI:MGI:4887551 NCBI chrNW_004955414:19,228,615...19,235,523 JBrowse link
G Lrrk2 leucine rich repeat kinase 2 ISO (PMID:25416817) ParkinsonsUK-UCL PMID:25416817 NCBI chrNW_004955505:84,324...216,923 JBrowse link
G Lyst lysosomal trafficking regulator ISO (MGI:MGI:53816|PMID:4697831), (MGI:MGI:53992|PMID:1113502), (MGI:MGI:55104|PMID:6170520), (MGI:MGI:56449|PMID:4031470)
(MGI:MGI:1099544|PMID:9368050)
MGI PMID:1113502, PMID:4031470, PMID:4697831, PMID:6170520, PMID:9368050 MGI:MGI:1099544, MGI:MGI:53816, MGI:MGI:53992, MGI:MGI:55104, MGI:MGI:56449 NCBI chrNW_004955492:4,161,976...4,371,637 JBrowse link
G Mbtps1 membrane bound transcription factor peptidase, site 1 ISO (PMID:21719679) UniProtKB PMID:21719679 NCBI chrNW_004955564:176,230...226,555 JBrowse link
G Mfsd8 major facilitator superfamily domain containing 8 ISO (MGI:MGI:5575728|PMID:24423645)
(MGI:MGI:5751614|PMID:26681805)
MGI PMID:24423645, PMID:26681805 MGI:MGI:5575728, MGI:MGI:5751614 NCBI chrNW_004955428:13,519,285...13,548,007 JBrowse link
G Mtor mechanistic target of rapamycin kinase ISO (PMID:22692423) UniProt PMID:22692423 NCBI chrNW_004955486:2,487,642...2,599,694 JBrowse link
G Myo7a myosin VIIA ISO (PMID:16001398) UniProtKB PMID:16001398 NCBI chrNW_004955414:14,576,356...14,647,500 JBrowse link
G Naglu N-acetyl-alpha-glucosaminidase ISO (MGI:MGI:3769195|PMID:17712420) MGI PMID:17712420 MGI:MGI:3769195 NCBI chrNW_004955451:16,445,338...16,449,243 JBrowse link
G Ppt1 palmitoyl-protein thioesterase 1 ISO (MGI:MGI:3612221|PMID:16368712)
(MGI:MGI:3654230|PMID:16542649)
MGI PMID:16368712, PMID:16542649 MGI:MGI:3612221, MGI:MGI:3654230 NCBI chrNW_004955452:17,518,345...17,549,112 JBrowse link
G Snapin SNAP associated protein ISO (MGI:MGI:4879078|PMID:20920792) MGI PMID:20920792 MGI:MGI:4879078 NCBI chrNW_004955545:306,546...308,229 JBrowse link
G Spg11 SPG11 vesicle trafficking associated, spatacsin ISO (MGI:MGI:5749311|PMID:26284655) MGI PMID:26284655 MGI:MGI:5749311 NCBI chrNW_004955416:11,084,448...11,168,478 JBrowse link
G Tfeb transcription factor EB ISO (PMID:23434374)
(PMID:22692423)
UniProtKB
UniProt
PMID:22692423, PMID:23434374 NCBI chrNW_004955437:8,102,241...8,141,001 JBrowse link
G Tmem106b transmembrane protein 106B ISO (MGI:MGI:5588048|PMID:25066864) MGI PMID:25066864 MGI:MGI:5588048 NCBI chrNW_004955432:18,619,418...18,644,876 JBrowse link
G Tpcn2 two pore segment channel 2 ISO (PMID:25416817) ParkinsonsUK-UCL PMID:25416817 NCBI chrNW_004955422:16,899,730...16,923,962 JBrowse link
G Tpp1 tripeptidyl peptidase 1 ISO (MGI:MGI:3522013|PMID:15483130) MGI PMID:15483130 MGI:MGI:3522013 NCBI chrNW_004955414:22,324,847...22,330,912 JBrowse link
G Vps18 VPS18 core subunit of CORVET and HOPS complexes ISO (PMID:18799622) UniProtKB PMID:18799622 NCBI chrNW_004955416:7,772,653...7,780,408 JBrowse link
G Vps35 VPS35 retromer complex component ISO (MGI:MGI:5694519|PMID:26203154) ParkinsonsUK-UCL PMID:26203154 MGI:MGI:5694519 NCBI chrNW_004955448:207,582...240,264 JBrowse link
G Washc5 WASH complex subunit 5 ISO (MGI:MGI:6199426|PMID:30061306) MGI PMID:30061306 MGI:MGI:6199426 NCBI chrNW_004955461:145,993...199,274 JBrowse link
negative regulation of lysosome organization term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Becn1 beclin 1 ISO RGD PMID:25561470 RGD:11561937 NCBI chrNW_004955451:16,616,595...16,625,731 JBrowse link
phagolysosome assembly term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Coro1a coronin 1A ISO (PMID:12132654) UniProtKB PMID:12132654 NCBI chrNW_004955493:6,815,148...6,820,295 JBrowse link
G Myo7a myosin VIIA ISO (MGI:MGI:2662763|PMID:12743369) MGI PMID:12743369 MGI:MGI:2662763 NCBI chrNW_004955414:14,576,356...14,647,500 JBrowse link
G P2rx7 purinergic receptor P2X 7 ISO (MGI:MGI:3699774|PMID:11544318) MGI PMID:11544318 MGI:MGI:3699774 NCBI chrNW_004955482:7,048,674...7,087,525 JBrowse link
G Srpx sushi repeat containing protein X-linked ISO (MGI:MGI:3852261|PMID:19368996) MGI PMID:19368996 MGI:MGI:3852261 NCBI chrNW_004955601:286,092...364,235 JBrowse link
phagosome-lysosome docking term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cln3 CLN3 lysosomal/endosomal transmembrane protein, battenin ISO (MGI:MGI:5698740|PMID:26450516) UniProt PMID:26450516 MGI:MGI:5698740 NCBI chrNW_004955493:6,696,520...6,707,849 JBrowse link
phagosome-lysosome fusion term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cln3 CLN3 lysosomal/endosomal transmembrane protein, battenin ISO (MGI:MGI:5698740|PMID:26450516) UniProt PMID:26450516 MGI:MGI:5698740 NCBI chrNW_004955493:6,696,520...6,707,849 JBrowse link
G Pikfyve phosphoinositide kinase, FYVE-type zinc finger containing ISO (PMID:28779020)
(MGI:MGI:6103777|PMID:28779020)
UniProt PMID:28779020 MGI:MGI:6103777 NCBI chrNW_004955457:6,749,226...6,841,855 JBrowse link
G Pla2g5 phospholipase A2 group V ISO (MGI:MGI:3841317|PMID:19342668) UniProt PMID:19342668 MGI:MGI:3841317 NCBI chrNW_004955452:662,281...721,507 JBrowse link
G Rab20 RAB20, member RAS oncogene family ISO (PMID:21255211) UniProtKB PMID:21255211 NCBI chrNW_004955404:2,087,580...2,088,545 JBrowse link
G Rab34 RAB34, member RAS oncogene family ISO (PMID:21255211)
(MGI:MGI:5467668|PMID:23197834)
UniProtKB
ParkinsonsUK-UCL
PMID:21255211, PMID:23197834 MGI:MGI:5467668 NCBI chrNW_004955481:4,441,290...4,445,969 JBrowse link
G Rab39a RAB39A, member RAS oncogene family ISO (PMID:21255211) UniProtKB PMID:21255211 NCBI chrNW_004955412:10,224,074...10,240,270 JBrowse link
G Rab7a RAB7A, member RAS oncogene family ISO (PMID:21255211) UniProtKB PMID:21255211 NCBI chrNW_004955429:15,103,792...15,167,498 JBrowse link
G Syt7 synaptotagmin 7 ISO (MGI:MGI:3690533|PMID:16982801) UniProtKB PMID:16982801 MGI:MGI:3690533 NCBI chrNW_004955511:6,051,392...6,093,651 JBrowse link
G Tmem175 transmembrane protein 175 ISO (MGI:MGI:5693670|PMID:26317472) UniProtKB PMID:26317472 MGI:MGI:5693670 NCBI chrNW_004955514:434,283...453,239 JBrowse link
phagosome-lysosome fusion involved in apoptotic cell clearance term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Spg11 SPG11 vesicle trafficking associated, spatacsin ISO (MGI:MGI:5749311|PMID:26284655) MGI PMID:26284655 MGI:MGI:5749311 NCBI chrNW_004955416:11,084,448...11,168,478 JBrowse link
positive regulation of lysosomal membrane permeability term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Hspa8 heat shock protein family A (Hsp70) member 8 ISO RGD PMID:9038169 RGD:10059368 NCBI chrNW_004955412:23,863,513...23,867,984 JBrowse link
positive regulation of lysosome organization term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Grn granulin precursor ISO (MGI:MGI:5905514|PMID:28073925)
(PMID:28073925)
UniProt PMID:28073925 MGI:MGI:5905514 NCBI chrNW_004955451:17,368,600...17,371,981 JBrowse link
regulation of lysosomal lumen pH term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Lrrk2 leucine rich repeat kinase 2 ISO (PMID:22012985) ParkinsonsUK-UCL PMID:22012985 NCBI chrNW_004955505:84,324...216,923 JBrowse link
G Tasl TLR adaptor interacting with endolysosomal SLC15A4 ISO (PMID:31001245) UniProt PMID:31001245 NCBI chrNW_004955531:207,614...293,127 JBrowse link
G Tmem165 transmembrane protein 165 ISO (PMID:23569283) UniProtKB PMID:23569283 NCBI chrNW_004955447:15,538,958...15,543,885 JBrowse link
G Tmem175 transmembrane protein 175 ISO (MGI:MGI:5693670|PMID:26317472) UniProtKB PMID:26317472 MGI:MGI:5693670 NCBI chrNW_004955514:434,283...453,239 JBrowse link
G Vps33a VPS33A core subunit of CORVET and HOPS complexes ISO (PMID:28013294) UniProtKB PMID:28013294 NCBI chrNW_004955482:6,333,282...6,352,369 JBrowse link
regulation of lysosomal membrane permeability term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Laptm4b lysosomal protein transmembrane 4 beta ISO (PMID:26280656) UniProtKB PMID:26280656 NCBI chrNW_004955417:13,574,493...13,625,669 JBrowse link
regulation of lysosome organization term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Laptm4b lysosomal protein transmembrane 4 beta ISO (PMID:26280656) UniProtKB PMID:26280656 NCBI chrNW_004955417:13,574,493...13,625,669 JBrowse link
G Trex1 three prime repair exonuclease 1 ISO (MGI:MGI:5460923|PMID:23160154) MGI PMID:23160154 MGI:MGI:5460923 NCBI chrNW_004955532:533,877...535,767 JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 11857
    cellular process 11058
      cellular component organization or biogenesis 4836
        cellular component organization 4756
          organelle organization 2935
            vacuole organization 143
              lytic vacuole organization 64
                lysosome organization + 64
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.