VPS33B (VPS33B late endosome and lysosome associated)
|
Gene
|
Entrez ID
Entrez Gene ID - the GENE ID in NCBI Gene database.
|
26276 |
Gene nameGene Name - the full gene name approved by the HGNC.
|
VPS33B late endosome and lysosome associated |
Gene symbolGene Symbol - the official gene symbol approved by the HGNC, which is a short abbreviated form of the gene name.
|
VPS33B |
SynonymsGene synonyms aliases
|
KDIDAR, PFIC12 |
ChromosomeChromosome number
|
15 |
Chromosome locationChromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.
|
15q26.1 |
SummarySummary of gene provided in NCBI Entrez Gene.
|
Vesicle mediated protein sorting plays an important role in segregation of intracellular molecules into distinct organelles. Genetic studies in yeast have identified more than 40 vacuolar protein sorting (VPS) genes involved in vesicle transport to vacuol |
SNPsSNP information provided by dbSNP.
|
SNP ID |
Visualize variation |
Clinical significance |
Consequence |
rs11542638 |
G>A,T |
Pathogenic, likely-benign, benign |
5 prime UTR variant, coding sequence variant, stop gained, synonymous variant, intron variant, non coding transcript variant, genic upstream transcript variant |
rs121434383 |
G>A |
Pathogenic |
Non coding transcript variant, coding sequence variant, stop gained |
rs121434384 |
G>A,T |
Pathogenic |
Non coding transcript variant, coding sequence variant, synonymous variant, stop gained |
rs139655526 |
A>G |
Conflicting-interpretations-of-pathogenicity |
Non coding transcript variant, coding sequence variant, synonymous variant |
rs139709507 |
C>T |
Uncertain-significance, conflicting-interpretations-of-pathogenicity |
Non coding transcript variant, coding sequence variant, missense variant |
rs142964161 |
G>A |
Conflicting-interpretations-of-pathogenicity |
Non coding transcript variant, coding sequence variant, synonymous variant |
rs145092724 |
A>C |
Conflicting-interpretations-of-pathogenicity |
Non coding transcript variant, coding sequence variant, missense variant |
rs145303578 |
C>T |
Uncertain-significance, conflicting-interpretations-of-pathogenicity |
Non coding transcript variant, coding sequence variant, missense variant |
rs201431055 |
C>T |
Conflicting-interpretations-of-pathogenicity, uncertain-significance |
Intron variant |
rs201436915 |
G>A |
Conflicting-interpretations-of-pathogenicity |
Coding sequence variant, non coding transcript variant, synonymous variant |
rs372769808 |
C>T |
Pathogenic |
Intron variant, genic upstream transcript variant |
rs375376103 |
G>A |
Conflicting-interpretations-of-pathogenicity |
Intron variant |
rs398122407 |
C>G |
Likely-pathogenic, pathogenic-likely-pathogenic, pathogenic |
Intron variant |
rs398122408 |
GT>- |
Pathogenic |
Coding sequence variant, non coding transcript variant, frameshift variant |
rs751858602 |
C>A,T |
Pathogenic |
Stop gained, non coding transcript variant, coding sequence variant, missense variant |
rs774529051 |
T>C |
Pathogenic |
Splice acceptor variant |
rs774653538 |
C>A,T |
Pathogenic |
Splice donor variant |
rs780626848 |
G>A |
Pathogenic |
Stop gained, coding sequence variant, non coding transcript variant |
rs794726658 |
C>T |
Pathogenic |
Splice donor variant |
rs886043445 |
T>- |
Pathogenic |
Frameshift variant, coding sequence variant, non coding transcript variant |
rs997425993 |
C>A |
Conflicting-interpretations-of-pathogenicity |
Non coding transcript variant, coding sequence variant, synonymous variant |
rs1064793614 |
A>- |
Pathogenic |
Frameshift variant, genic upstream transcript variant, 5 prime UTR variant, non coding transcript variant, coding sequence variant |
rs1416595652 |
T>C |
Conflicting-interpretations-of-pathogenicity |
Synonymous variant, non coding transcript variant, 5 prime UTR variant, genic upstream transcript variant, coding sequence variant, intron variant |
rs1442840881 |
->G |
Pathogenic |
Frameshift variant, non coding transcript variant, coding sequence variant |
rs1555458189 |
C>T |
Pathogenic |
Splice donor variant |
rs1555459218 |
C>G |
Likely-pathogenic |
Synonymous variant, coding sequence variant, non coding transcript variant |
rs1596348299 |
A>G |
Pathogenic |
Coding sequence variant, non coding transcript variant, missense variant |
rs1596358564 |
AG>- |
Likely-pathogenic |
Coding sequence variant, frameshift variant, non coding transcript variant |
|
miRNAmiRNA information provided by mirtarbase database.
|
|
Gene ontology (GO)Gene ontology information of associated ontologies with gene provided by GO database.
|
GO ID |
Ontology |
Definition |
Evidence |
Reference |
GO:0005515 |
Function |
Protein binding |
IPI |
16189514, 18474358, 19109425, 20190753, 22677173, 23901104, 23918659, 25416956, 25783203, 26871637, 28017832, 32296183 |
GO:0005737 |
Component |
Cytoplasm |
IDA |
15052268, 20190753 |
GO:0005764 |
Component |
Lysosome |
IBA |
21873635 |
GO:0005764 |
Component |
Lysosome |
IDA |
15052268 |
GO:0005765 |
Component |
Lysosomal membrane |
IEA |
|
GO:0005770 |
Component |
Late endosome |
IDA |
15052268 |
GO:0005794 |
Component |
Golgi apparatus |
IDA |
27435297 |
GO:0006886 |
Process |
Intracellular protein transport |
IBA |
21873635 |
GO:0006904 |
Process |
Vesicle docking involved in exocytosis |
IEA |
|
GO:0007032 |
Process |
Endosome organization |
IMP |
23918659 |
GO:0008333 |
Process |
Endosome to lysosome transport |
IMP |
25783203 |
GO:0015031 |
Process |
Protein transport |
IMP |
15052268 |
GO:0016192 |
Process |
Vesicle-mediated transport |
IBA |
21873635 |
GO:0016192 |
Process |
Vesicle-mediated transport |
IDA |
15790593 |
GO:0017185 |
Process |
Peptidyl-lysine hydroxylation |
IMP |
27435297 |
GO:0030136 |
Component |
Clathrin-coated vesicle |
IDA |
21411634 |
GO:0030897 |
Component |
HOPS complex |
IDA |
19109425 |
GO:0030897 |
Component |
HOPS complex |
IDA |
25783203 |
GO:0031091 |
Component |
Platelet alpha granule |
IDA |
16123220 |
GO:0031901 |
Component |
Early endosome membrane |
IDA |
21411634 |
GO:0031902 |
Component |
Late endosome membrane |
IEA |
|
GO:0032400 |
Process |
Melanosome localization |
IDA |
15790593 |
GO:0032418 |
Process |
Lysosome localization |
IDA |
15790593 |
GO:0032963 |
Process |
Collagen metabolic process |
IMP |
27435297 |
GO:0033263 |
Component |
CORVET complex |
IBA |
21873635 |
GO:0044877 |
Function |
Protein-containing complex binding |
IPI |
21411634 |
GO:0048471 |
Component |
Perinuclear region of cytoplasm |
IDA |
19109425 |
GO:0055037 |
Component |
Recycling endosome |
IEA |
|
GO:0061025 |
Process |
Membrane fusion |
IMP |
15052268 |
GO:0070889 |
Process |
Platelet alpha granule organization |
IMP |
16123220 |
GO:0097352 |
Process |
Autophagosome maturation |
IMP |
25783203 |
|
Other IDsOther ids provides unique ids of gene in databases such as OMIM, HGNC, ENSEMBLE.
|
|
Protein
|
UniProt ID |
Q9H267 |
Protein name |
Vacuolar protein sorting-associated protein 33B (hVPS33B) |
Protein function |
May play a role in vesicle-mediated protein trafficking to lysosomal compartments and in membrane docking/fusion reactions of late endosomes/lysosomes. Required for proper trafficking and targeting of the collagen-modifying enzyme lysyl hydroxyl |
Family and domains |
Pfam
Accession |
ID |
Position in sequence |
Description |
Type |
PF00995 |
Sec1 |
37 → 611 |
Sec1 family |
Family |
|
Sequence |
|
Sequence length |
617 |
Interactions |
View interactions |
PathwaysPathway information has different metabolic/signaling pathways associated with genes. Each record is hyperlinked to a complete information page which also includes links to the KEGG/Reactome pathway database.
|
|
Associated diseases
|
Causal |
Disease name |
Disease term |
dbSNP ID |
References |
Arthrogryposis multiplex congenita |
Arthrogryposis |
rs1586285494, rs80358233, rs137853305, rs1559154278, rs398124167, rs398124172, rs587780399, rs786204576, rs786204430, rs769345284, rs749355583, rs793888524, rs793888525, rs878854368, rs555445835, rs758105619, rs886041851, rs794727136, rs755239192, rs760715690, rs773952935, rs112610938, rs1057516676, rs1057516996, rs780022652, rs1057517399, rs1057517360, rs1057518353, rs1057517977, rs1064796311, rs779232987, rs775997446, rs1064797093, rs1064797094, rs1064797095, rs755500591, rs754272530, rs758247804, rs200731870, rs747179265, rs1553740233, rs776569219, rs375628303, rs775631800, rs781667543, rs1553548666, rs928945364, rs763364977, rs1458048713, rs1553883480, rs1472403020, rs1336053002, rs202048855, rs1197561990, rs755531536, rs1554112524, rs762133567, rs1553555882, rs934111355, rs1255744452, rs1366269616, rs1555734932, rs1553548207, rs752582527, rs1257495033, rs113525641, rs755863625, rs374929094, rs539819851, rs1366853918, rs1218073575, rs1553537512, rs1553552384, rs747564597, rs776059611, rs756726488, rs1357811155, rs1553939600, rs772009599, rs1255445731, rs1011425121, rs1553561697, rs1553551748, rs1553552413, rs760935667, rs1553603400, rs1302373559, rs1389892619, rs1553710982, rs757157808, rs1180339426, rs761964375, rs1235589246, rs1443738549, rs1553934586, rs1553934597, rs1553603437, rs749452641, rs1553904694, rs754369875, rs112517981, rs774495973, rs1428597732, rs746999970, rs113091511, rs1553603958, rs1553469502, rs770797137, rs1553608621, rs1159756073, rs776167256, rs778593702, rs1553601066, rs1553689774, rs760768475, rs1559296376, rs201636991, rs1559039815, rs748922882, rs772366030, rs1207534366, rs1259297878, rs762780413, rs1559360386, rs1559940778, rs760200697, rs1344099907, rs750900690, rs1559168230, rs746177326, rs761067911, rs1323364980, rs537560378, rs1319778592, rs1340063197, rs1577833924, rs750585238, rs1600470099, rs1575714905, rs1576203853, rs779909544, rs760124743, rs2096362304, rs1212374733, rs1490309743, rs767709270, rs1374971806, rs2096491549, rs2097886912, rs2099021112, rs2097758221, rs1474341248, rs925947627 |
18853461 |
Arthrogryposis, renal dysfunction, and cholestasis |
Arthrogryposis, renal dysfunction, and cholestasis 1, Arthrogryposis-renal dysfunction-cholestasis syndrome |
rs267607173, rs794726653, rs200370925, rs267607171, rs267607172, rs121434383, rs121434384, rs121434385, rs794726658, rs1555460030, rs398122407, rs398122408, rs864622006, rs769333468, rs751858602, rs372769808, rs747749610, rs1555364979, rs1555366438, rs1555459218, rs1555459968, rs11542638, rs1594910243, rs1596358564, rs1594929571, rs1594895847, rs1596348299 |
19274792, 15052268, 16896922, 23918659, 21851503, 24782640, 25239142, 22753090, 18853461, 24917129, 20190753 |
Atrial septal defect |
Atrial Septal Defects |
rs137852951, rs137852953, rs137852955, rs267607106, rs104893900, rs104893901, rs104893903, rs606231358, rs606231359, rs137852683, rs606231360, rs104893907, rs104894073, rs1585703301, rs104894074, rs267606903, rs121912677, rs387906585, rs387906773, rs72554028, rs587782928, rs587782929, rs587782930, rs587784067, rs1555226315, rs879253754, rs1114167356, rs773922431, rs1554093487, rs1554093433, rs1554093461, rs1561621507, rs1561619801, rs766692577, rs1581108237, rs1581111034, rs1579663872, rs1583066622, rs1456289029, rs1761430125 |
|
Congenital anomalies of kidney and urinary tract |
Cakut |
rs267606865, rs121908436, rs281875326, rs879255515, rs75462234, rs869320679, rs760905589, rs797045022, rs869320624, rs745597204, rs1114167358, rs1555879360, rs1577330805, rs1008555507 |
18853461 |
Developmental delay |
Global developmental delay |
rs28941770, rs199469464, rs281865469, rs143747297, rs398123009, rs587777428, rs786205133, rs606231459, rs797044854, rs797045027, rs864309504, rs878853160, rs886039902, rs886042046, rs886041291, rs886041382, rs1057518991, rs1057518699, rs753254213, rs748294403, rs762552974, rs1135401795, rs1553121073, rs1553122926, rs1364690005, rs1554086554, rs1554210415, rs1554168326, rs1554776342, rs1553873247, rs1567860112, rs779009256, rs1557447255, rs1564568350, rs780011005, rs1597464953, rs1200336864, rs1569513017, rs1587459606, rs1570332505, rs748888652, rs1575155995, rs2087029320, rs1589669105, rs1601769604, rs1184981709, rs749201074 |
|
Diabetes mellitus |
Diabetes Mellitus, Non-Insulin-Dependent |
rs587776515, rs61730328, rs606231121, rs606231122, rs79020217, rs77625743, rs78378398, rs606231123, rs4402960, rs1362648752, rs3745368, rs3792267, rs3842570, rs5030952, rs2975760, rs119489103, rs7903146, rs12255372, rs11196205, rs104893649, rs80356624, rs80356616, rs80356625, rs80356611, rs104894237, rs80356613, rs137852740, rs137852786, rs387906407, rs151344623, rs28938469, rs28936371, rs137852672, rs80356637, rs80356642, rs80356653, rs137852673, rs137852674, rs80356634, rs80356651, rs193929360, rs137853334, rs137853335, rs137853336, rs1600731198, rs137853338, rs121964882, rs121964883, rs387906511, rs121964884, rs121964885, rs2147483647, rs387906512, rs121964887, rs121964888, rs121964889, rs121964890, rs121964891, rs28934878, rs74315383, rs121964893, rs886037620, rs886037621, rs80356663, rs121434593, rs121913150, rs587776825, rs137853236, rs2135842335, rs137853237, rs137853238, rs2135818776, rs1566092470, rs1463923467, rs137853243, rs137853244, rs2135839114, rs137853245, rs2135847417, rs121918407, rs104894005, rs104894006, rs80356655, rs104894008, rs104894009, rs104894010, rs104894011, rs80356654, rs104894016, rs193929376, rs193929374, rs193929375, rs193929373, rs80356666, rs80356669, rs80356664, rs193929366, rs1048095, rs193929355, rs193929356, rs1259467443, rs104893642, rs387906777, rs387906779, rs141804752, rs182349376, rs184917682, rs193922396, rs193922400, rs193922401, rs137852676, rs193922407, rs193922638, rs193922257, rs193922258, rs193922259, rs193922260, rs193922261, rs193922262, rs193922263, rs193922264, rs193922265, rs193922268, rs193921338, rs193922269, rs193922272, rs193922273, rs193922275, rs193922278, rs193922279, rs193922280, rs193922281, rs193922282, rs193922283, rs193922284, rs193922286, rs193922287, rs193922289, rs193922291, rs193922295, rs193922297, rs193922300, rs193922302, rs193922303, rs193922308, rs193922313, rs193922314, rs144723656, rs193922315, rs193922316, rs193922317, rs148311934, rs193922319, rs193922320, rs193922326, rs193922329, rs193922330, rs193922331, rs193922335, rs193922336, rs193922338, rs193922340, rs193922341, rs193922471, rs193922475, rs193922476, rs193922479, rs193922355, rs193922356, rs193922576, rs193922578, rs193922582, rs193922588, rs193922592, rs193922594, rs193922596, rs386134267, rs193922598, rs193922599, rs193922600, rs193922604, rs193922605, rs397514580, rs397515519, rs267601516, rs587780343, rs587780345, rs587780346, rs587780347, rs587780357, rs148954387, rs61736969, rs587783673, rs587783672, rs587783669, rs786204676, rs794727236, rs151344624, rs794727775, rs794727839, rs199946797, rs869320673, rs796065047, rs759072800, rs797045595, rs797045209, rs797045207, rs797045213, rs797045623, rs863225280, rs149703259, rs864321656, rs139964066, rs777870079, rs878853246, rs769268803, rs886039380, rs886041392, rs886041391, rs886042610, rs143064649, rs1057516192, rs746480424, rs1057516281, rs576684889, rs754728827, rs1057520291, rs1057520779, rs893256143, rs1057520504, rs1057524790, rs1057524902, rs1057524904, rs1057524905, rs764232985, rs1064793998, rs1064794268, rs769086289, rs369429452, rs1085307913, rs1131691416, rs765432081, rs1131692182, rs748749585, rs1554335441, rs762263694, rs1312678560, rs767565869, rs1375656631, rs1554335391, rs1360415315, rs1554335616, rs1554335752, rs1554909277, rs769518471, rs757171524, rs768951263, rs762703502, rs1555212248, rs1555212359, rs1555813319, rs1555816654, rs1553638903, rs1553638909, rs948820149, rs371977235, rs1553784995, rs76474829, rs200998587, rs1415041911, rs1554334894, rs1260178539, rs1554335421, rs1555211904, rs779184183, rs1554335564, rs200670692, rs1400535021, rs1554334872, rs1555212749, rs1553876668, rs1553878211, rs954727530, rs1554924035, rs372307320, rs925231098, rs1554913069, rs1554933565, rs766431403, rs746714109, rs751279984, rs770664202, rs1008906426, rs758844607, rs1554924540, rs1566092307, rs753998395, rs1565885935, rs1167124132, rs1376796469, rs556436603, rs1562715657, rs1486280029, rs1564869850, rs755259997, rs769569410, rs1172328722, rs1286294151, rs1375557127, rs1568731279, rs1562715426, rs556581174, rs1564865302, rs1565886545, rs776793516, rs1568724014, rs1392795567, rs781260712, rs1562719705, rs1382448285, rs1564977373, rs750586210, rs1598842892, rs1583592247, rs780612692, rs1593060859, rs1476637197, rs751279776, rs1593060890, rs1191912908, rs1167675604, rs1583601110, rs1593058932, rs778611627, rs753296261 |
22885922, 24509480 |
Ichthyosis |
Ichthyoses |
rs199766569, rs587776996, rs587777262, rs863223405, rs370031870, rs1569044747, rs200806519 |
|
Kidney disease |
Kidney Diseases |
rs74315342, rs749740335, rs757649673, rs112417755, rs35138315 |
|
Microcephaly |
Microcephaly |
rs397704721, rs267607176, rs267607177, rs397704725, rs267606717, rs267606718, rs199422202, rs121434311, rs199422203, rs199422126, rs387906274, rs121434305, rs199422125, rs199422135, rs189678019, rs199422184, rs137852994, rs137852995, rs137852996, rs137852997, rs145489194, rs80338860, rs137852494, rs121918609, rs199422207, rs199422206, rs29001566, rs864321658, rs199422138, rs199422139, rs199422141, rs199422144, rs199422147, rs199422151, rs199422152, rs199422153, rs199422157, rs199422159, rs199422160, rs199422161, rs140602858, rs199422164, rs199422165, rs148294838, rs199422134, rs199422168, rs199422172, rs199422173, rs199422131, rs199422177, rs199422180, rs199422185, rs199422186, rs199422187, rs143931757, rs199422189, rs199422192, rs199422194, rs199422195, rs199422196, rs199422197, rs199422199, rs753597039, rs1488084787, rs387906961, rs755862917, rs387907082, rs587776899, rs387907083, rs587776900, rs587776901, rs387907084, rs863223322, rs764201220, rs202247811, rs763915472, rs587776986, rs587777036, rs398122971, rs374351172, rs373278668, rs398122976, rs121909123, rs587783393, rs730882076, rs587783211, rs144716013, rs606231255, rs587783215, rs587783216, rs587783220, rs587783221, rs587783225, rs587783227, rs587783228, rs587783230, rs587783238, rs587783239, rs587783240, rs587783245, rs587783247, rs587783248, rs587783258, rs587783259, rs587783263, rs587783265, rs587783268, rs587783269, rs587783272, rs587783275, rs587783277, rs587783278, rs587783280, rs587783282, rs587783283, rs587783285, rs587783287, rs587783288, rs587783289, rs587783292, rs587783295, rs587784452, rs587783741, rs587783735, rs587783392, rs587783390, rs587783387, rs587783410, rs202058504, rs587783423, rs587783421, rs587783414, rs587784553, rs587784558, rs587784546, rs587784549, rs587784554, rs587784412, rs876661307, rs869025200, rs747831095, rs748529285, rs797045316, rs797045315, rs797045314, rs759632528, rs797045313, rs797045311, rs754282058, rs797045441, rs797045454, rs797045430, rs869312853, rs797046109, rs767399782, rs863225127, rs863225464, rs863225465, rs780270096, rs864321621, rs864321620, rs775277800, rs879253817, rs869312824, rs761447719, rs753406334, rs147622433, rs199422137, rs879255522, rs879255524, rs879255523, rs886037892, rs886037893, rs886037894, rs886037895, rs199422169, rs886041709, rs886041282, rs138228629, rs759188041, rs769688376, rs1057517688, rs1057519087, rs1057518268, rs933106143, rs201362977, rs754909135, rs1057520873, rs1060499758, rs1060499757, rs199422146, rs748016594, rs1085307120, rs763715733, rs1064795945, rs763800571, rs1554728351, rs1553227021, rs555866170, rs1553895368, rs1334947797, rs769818500, rs1321892596, rs1553227645, rs1404276011, rs1553228275, rs1554471681, rs1554496609, rs1555420891, rs1555418825, rs587784548, rs1555723585, rs199736219, rs745997770, rs765275884, rs1553924800, rs1554730137, rs1229568621, rs1482100822, rs979186313, rs758157294, rs1555294652, rs1555299107, rs1553264033, rs1553259539, rs1553254322, rs1553259528, rs981349334, rs1553264036, rs1553253022, rs754267846, rs776034810, rs1342429887, rs752140135, rs1006898944, rs571640983, rs1477524771, rs763909256, rs199910503, rs1553223496, rs759663956, rs1553446603, rs1555139372, rs1555143325, rs1350194762, rs1555141158, rs1553225179, rs769481947, rs769364943, rs748011724, rs1334301723, rs746341112, rs149225624, rs765113367, rs1567024512, rs142865061, rs772050241, rs201721894, rs1557966012, rs1379578836, rs1568334868, rs1185537869, rs1602333390, rs1163303148, rs774338373, rs770540184, rs1571600045, rs1571601267, rs1571602991, rs1588472215, rs1599841026, rs1558328287, rs1571600860, rs1571596976, rs1309880692, rs1435239428, rs1588634016, rs1751797979, rs1810830776, rs1815354949, rs1949984655, rs886039658, rs1943461045, rs777711720, rs2031759596, rs1555710223, rs1221031683, rs774069989, rs2058919680, rs1170413397, rs1213710245, rs1599851667, rs1599760058, rs1971033478, rs746967357 |
|
Multiple congenital anomalies |
Multiple congenital anomalies |
rs1057517732 |
24917129, 18853461, 15052268, 16896922, 22753090 |
Ventricular septal defect |
Ventricular Septal Defects |
rs104894073, rs387906775 |
|
|
Unknown |
Disease name |
Disease term |
dbSNP ID |
References |
Cholestatic liver disease |
Cholestatic liver disease |
|
|
Conjugated hyperbilirubinemia |
Conjugated hyperbilirubinemia |
|
|
Micrognathism |
Micrognathism |
|
|
Nephrocalcinosis |
Nephrocalcinosis |
|
|
Vacuolar myopathy |
Vacuolar myopathy |
|
16896922 |
Ventricular hypertrophy |
Right Ventricular Hypertrophy |
|
|
|
|
|