Vps13b (vacuolar protein sorting 13B) - Rat Genome Database

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Gene: Vps13b (vacuolar protein sorting 13B) Mus musculus
Analyze
Symbol: Vps13b
Name: vacuolar protein sorting 13B
RGD ID: 1322508
MGI Page MGI
Description: Enables phosphatidylinositol-3-phosphate binding activity. Involved in acrosome assembly; central nervous system development; and maintenance of lens transparency. Acts upstream of or within several processes, including dentate gyrus development; head morphogenesis; and social behavior. Located in acrosomal membrane. Used to study Cohen syndrome and cataract. Human ortholog(s) of this gene implicated in Cohen syndrome. Orthologous to human VPS13B (vacuolar protein sorting 13 homolog B).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1810042B05Rik; 2310042E16Rik; 4732488H20; C330002D13Rik; C87206; Coh; Coh1; Cohen syndrome homolog 1; Cohen syndrome homolog 1 (human); cohen syndrome protein 1 homolog; D230005K13; intermembrane lipid transfer protein VPS13B; MGC189855; mKIAA0532; mKIAA5032; RIKEN cDNA 2310042E16 gene; vacuolar protein sorting 13B (yeast); vacuolar protein sorting-associated protein 13B
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391535,371,264 - 35,931,375 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1535,371,306 - 35,931,375 (+)EnsemblGRCm39 Ensembl
GRCm381535,371,118 - 35,931,229 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1535,371,160 - 35,931,229 (+)EnsemblGRCm38mm10GRCm38
MGSCv371535,301,301 - 35,860,984 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361535,315,749 - 35,875,818 (+)NCBIMGSCv36mm8
Celera1535,993,318 - 36,557,254 (+)NCBICelera
Cytogenetic Map15B3.1NCBI
cM Map1514.46NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (ISO)
3,4-methylenedioxymethamphetamine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
7,12-dimethyltetraphene  (EXP)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[e]pyrene  (ISO)
beta-lapachone  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP,ISO)
butanal  (ISO)
caffeine  (ISO)
cisplatin  (ISO)
clobetasol  (EXP)
cobalt dichloride  (ISO)
copper(II) chloride  (ISO)
crocidolite asbestos  (EXP)
dexamethasone  (ISO)
Dibutyl phosphate  (ISO)
doxorubicin  (ISO)
ethyl methanesulfonate  (ISO)
flutamide  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
gentamycin  (ISO)
glyphosate  (ISO)
Heliotrine  (ISO)
hydroquinone O-beta-D-glucopyranoside  (ISO)
indometacin  (ISO)
irinotecan  (ISO)
maneb  (EXP)
methapyrilene  (ISO)
methotrexate  (ISO)
O-methyleugenol  (ISO)
oxaliplatin  (ISO)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
phenobarbital  (EXP)
potassium chromate  (ISO)
resveratrol  (ISO)
senecionine  (ISO)
Senkirkine  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (EXP)
topotecan  (ISO)
triphenyl phosphate  (ISO)
trovafloxacin  (EXP)
tungsten  (EXP)
uranium atom  (ISO)
valproic acid  (EXP,ISO)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:10725249   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11544199   PMID:12466305   PMID:12466851   PMID:12477932   PMID:12520002   PMID:12693553  
PMID:12904583   PMID:14610273   PMID:16141072   PMID:16141073   PMID:16602821   PMID:18799693   PMID:19006247   PMID:29199018   PMID:30713523   PMID:30962439   PMID:31218450   PMID:31495077  
PMID:32325033   PMID:32554809   PMID:32915983   PMID:35445787   PMID:37573958   PMID:38355793   PMID:39010945  


Genomics

Comparative Map Data
Vps13b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391535,371,264 - 35,931,375 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1535,371,306 - 35,931,375 (+)EnsemblGRCm39 Ensembl
GRCm381535,371,118 - 35,931,229 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1535,371,160 - 35,931,229 (+)EnsemblGRCm38mm10GRCm38
MGSCv371535,301,301 - 35,860,984 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361535,315,749 - 35,875,818 (+)NCBIMGSCv36mm8
Celera1535,993,318 - 36,557,254 (+)NCBICelera
Cytogenetic Map15B3.1NCBI
cM Map1514.46NCBI
VPS13B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38899,013,274 - 99,877,580 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl899,013,266 - 99,877,580 (+)EnsemblGRCh38hg38GRCh38
GRCh378100,025,502 - 100,889,808 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 368100,094,670 - 100,958,984 (+)NCBINCBI36Build 36hg18NCBI36
Build 348100,094,669 - 100,659,188NCBI
Celera896,211,225 - 97,075,608 (+)NCBICelera
Cytogenetic Map8q22.2NCBI
HuRef895,228,270 - 96,092,444 (+)NCBIHuRef
CHM1_18100,066,127 - 100,930,595 (+)NCBICHM1_1
T2T-CHM13v2.08100,138,009 - 101,002,539 (+)NCBIT2T-CHM13v2.0
Vps13b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8768,436,996 - 69,013,574 (+)NCBIGRCr8
mRatBN7.2766,557,862 - 67,128,429 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl766,558,471 - 67,128,429 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx768,447,001 - 69,016,940 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0770,649,629 - 71,219,546 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0770,517,478 - 71,087,415 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0774,118,834 - 74,722,341 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl775,852,610 - 75,858,812 (+)NCBIRnor6.0rn6Rnor6.0
Rnor_5.0774,281,753 - 74,879,196 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4770,839,616 - 71,464,951 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1770,860,765 - 71,486,400 (+)NCBI
Celera763,647,181 - 64,211,271 (+)NCBICelera
Cytogenetic Map7q22NCBI
Vps13b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541714,570,904 - 15,227,877 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541714,570,399 - 15,228,106 (+)NCBIChiLan1.0ChiLan1.0
VPS13B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v27116,363,832 - 117,232,626 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1891,905,413 - 92,771,553 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0895,659,443 - 96,525,316 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1897,837,674 - 98,700,162 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl897,860,720 - 98,698,271 (+)Ensemblpanpan1.1panPan2
VPS13B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1131,101,226 - 1,834,933 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl131,101,610 - 1,871,225 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha131,096,682 - 1,830,492 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0131,253,509 - 1,988,060 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl131,253,722 - 1,988,056 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1131,096,002 - 1,830,212 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0131,203,819 - 1,943,474 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0131,210,806 - 1,944,933 (+)NCBIUU_Cfam_GSD_1.0
Vps13b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530335,855,538 - 36,526,292 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647043,281,469 - 43,951,805 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647043,281,905 - 43,952,523 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS13B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl437,090,936 - 37,820,419 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1437,085,929 - 37,821,159 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2440,006,383 - 40,389,291 (-)NCBISscrofa10.2Sscrofa10.2susScr3
VPS13B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1893,899,666 - 94,737,123 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl893,901,284 - 94,735,262 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603945,953,328 - 46,821,705 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vps13b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247636,102,674 - 6,864,817 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247636,101,943 - 6,866,457 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Vps13b
15140 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:262
Count of miRNA genes:230
Interacting mature miRNAs:243
Transcripts:ENSMUST00000048646
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
11252136Modvl4_mmodifier of vacuolated lens (mouse)15562049439620614Mouse
27226777Tibl8_mtibia length 8, 5 week (mouse)15692948184584201Mouse
1302165Yv_myellow value (mouse)Not determined151384700647847148Mouse
12904003Opfaq12_mopen field activity QTL 12 (mouse)153435891138447901Mouse
27226773Tibl16_mtibia length 16, 10 week (mouse)15692948175871849Mouse
1301406Egrd2_mearly growth rate (mouse)Not determined152631178060311880Mouse
1301020Pheo_mpheomelanin (mouse)Not determined151384700647847148Mouse
4141358Ath22_matherosclerosis 22 (mouse)Not determined346465237464652Mouse
10412172Habiir5_mhyperoxic acute lung injury imprinted region 5 (mouse)Not determined15927302243311880Mouse
4142252Tailaq4_mtail length adjusted QTL 4 (mouse)Not determined348969478601286Mouse
1301760Dob9_mdietary obesity 9 (mouse)Body fat amountadiposity index152603568037781301Mouse
27226759Feml17_mfemur length 17, 10 week (mouse)15762948155263396Mouse
27095940Ulnl8_mulna length 8, 10 week (mouse)15722948155263396Mouse
27226755Feml22_mfemur length 22, 16 week (mouse)15762948159271849Mouse
26884409Bzwq16_mbi-zygomatic width QTL 16, 16 week (mouse)15612948138000244Mouse
26884412Bzwq10_mbi-zygomatic width QTL 10, 10 week (mouse)15612948171471849Mouse
1301557Bbaa22_mB.burgdorferi-associated arthritis 22 (mouse)Not determined152446257258462805Mouse
1301433Rapop5_mradiation-induced apoptosis 5 (mouse)Not determined15927302279474762Mouse
1301951Eila3_methanol induced locomotor activity 3 (mouse)Not determined151492758748927756Mouse
27226800Scvln20_msacral vertebrae length 2, 16 week (mouse)152660008666371849Mouse
26884392Humsd8_mhumerus midshaft diameter 8, 16 week (mouse)152930014676084200Mouse
4141192Ssrq2_mstress response QTL 2 (mouse)Not determined927302256186850Mouse
1300772Bglq16_mbody growth late QTL 16 (mouse)Not determined152631178060311880Mouse
26884387Skwq8_mskull length QTL 8, 10 week (mouse)15612948168271849Mouse
13432181Rotse2_mrotarod training saline/ethanol 2 (mouse)153417039135570391Mouse
26884384Skwq12_mskull length QTL 12, 16 week (mouse)15612948150763396Mouse
27226786Feml11_mfemur length 11, 5 week (mouse)15612948175871849Mouse
4141952W3q7_mweight 3 weeks QTL 7 (mouse)Not determined348969478601286Mouse
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156129481100797881Mouse
27226717Tibw4_mtibia width 4, proximal, 10 week (mouse)15612948178684200Mouse
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402203102896555Mouse
26884439Sklq11_mskull length QTL 11, 10 week (mouse)15812948447663396Mouse
4142448Tailq6_mtail length QTL 6 (mouse)Not determined348969478601286Mouse
1357659Epfpq4_mepididymal fat percentage QTL 4 (mouse)Not determined15348969478601286Mouse
4141423Nstr2_mnerve sheath tumor resistance QTL 2 (mouse)Not determined1492758748927756Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800146102008435Mouse
26884429Zlq6_mzygomatic length QTL 6, 10 week (mouse)15682948144963396Mouse
1301450Bpq6_mblood pressure QTL 6 (mouse)Not determined152828264662282739Mouse
14928313Manh78_mmandible shape 78 (mouse)152148464155484641Mouse
26884417Bzwq4_mbi-zygomatic width QTL 4, 5 week (mouse)15612948172471849Mouse
12859288Criq1_mCitrobacter rodentium infection QTL 1 (mouse)151603395450033954Mouse
1357512Bsbob5_mBSB obesity 5 (mouse)Not determined152828264662282739Mouse
26884423Zlq10_mzygomatic length QTL 10, 16 week (mouse)152060008650763396Mouse
12859289Criq3_mCitrobacter rodentium infection QTL 3 (mouse)152259376556593765Mouse
4141409Radsvq1_mradiation sensitivity QTL 1 (mouse)Not determined2548497859484978Mouse
1357514Mbis3_mMycobacterium bovis-induced systemic lupus erythematosus 3 (mouse)Not determined162631178060311880Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578416103425899Mouse
27095932Ulnl11_mulna length 11, 16 week (mouse)15612948176384200Mouse
1357559Scfq2_msubcutaneous fat pad weight QTL 2 (mouse)Not determined15348969478601286Mouse
1302007Bbaa14_mB.burgdorferi-associated arthritis 14 (mouse)Not determined151492758748927756Mouse
1301499Bdln2_mbody length 2 (mouse)Not determined151564534349645470Mouse
27095922Pglq11_mpelvic girdle length QTL 11, 10 week (mouse)15812948438763395Mouse
4142160Femwf10_mfemur work to failure 10 (mouse)Not determined2289301456893160Mouse
10401902Sicd2_mseizure-induced cell death 2 (mouse)Not determined15347438971197538Mouse
27226734Tibmd5_mtibia midshaft diameter 5, 10 week (mouse)15612948186684201Mouse
1300578Cd8ts3_mCD8 T cell subset 3 (mouse)Not determined153400469468004804Mouse
1301345Bgeq14_mbody growth early QTL 14 (mouse)Not determined152631178060311880Mouse
1300967Bdt6_mbone density traits 6 (mouse)Not determined152529580659295928Mouse
4140994Shali3_msurvival time to hyperoxic acute lung injury 3 (mouse)Not determined927302243311880Mouse
27226721Tibw8_mtibia width 8, proximal, 16 week (mouse)15692948175871849Mouse
26884452Sklq17_mskull length QTL 17, 16 week (mouse)153020014657963396Mouse

Markers in Region
C87206  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381535,930,807 - 35,930,979UniSTSGRCm38
MGSCv371535,860,562 - 35,860,734UniSTSGRCm37
Celera1536,556,832 - 36,557,004UniSTS
Cytogenetic Map15B3.1UniSTS
Whitehead/MRC_RH15365.9UniSTS
fc31g12.x1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381535,791,848 - 35,791,989UniSTSGRCm38
MGSCv371535,721,603 - 35,721,744UniSTSGRCm37
Celera1536,413,854 - 36,413,995UniSTS
Cytogenetic Map15B3.1UniSTS
44.MHAa63d8.seq  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381535,616,144 - 35,616,335UniSTSGRCm38
MGSCv371535,545,899 - 35,546,090UniSTSGRCm37
Celera1536,236,875 - 36,237,066UniSTS
Cytogenetic Map15B3.1UniSTS
Whitehead_YAC15 UniSTS
D15Mit56  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381535,822,471 - 35,822,570UniSTSGRCm38
MGSCv371535,752,226 - 35,752,325UniSTSGRCm37
Celera1536,446,175 - 36,446,274UniSTS
Cytogenetic Map15B3.1UniSTS
cM Map1514.8UniSTS
Whitehead Genetic1516.4UniSTS
Whitehead_YAC15 UniSTS
C87206  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381535,930,909 - 35,931,130UniSTSGRCm38
MGSCv371535,860,664 - 35,860,885UniSTSGRCm37
Celera1536,556,934 - 36,557,155UniSTS
Cytogenetic Map15B3.1UniSTS
Whitehead/MRC_RH15368.55UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_177151 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC121598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC122241 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC144772 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC157521 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC166356 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AI481684 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK007749 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK009750 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK029066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK049111 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK051828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK053274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK122302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB205294 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC089558 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC158052 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ558426 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BU704403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CF164702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000048646   ⟹   ENSMUSP00000045490
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1535,371,306 - 35,931,375 (+)Ensembl
GRCm38.p6 Ensembl1535,371,160 - 35,931,229 (+)Ensembl
Ensembl Acc Id: ENSMUST00000226579
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1535,371,712 - 35,643,098 (+)Ensembl
GRCm38.p6 Ensembl1535,371,566 - 35,642,952 (+)Ensembl
Ensembl Acc Id: ENSMUST00000227309
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1535,371,692 - 35,420,297 (+)Ensembl
GRCm38.p6 Ensembl1535,371,546 - 35,420,151 (+)Ensembl
Ensembl Acc Id: ENSMUST00000227455   ⟹   ENSMUSP00000153856
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1535,371,672 - 35,372,244 (+)Ensembl
GRCm38.p6 Ensembl1535,371,526 - 35,372,098 (+)Ensembl
Ensembl Acc Id: ENSMUST00000227567
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1535,834,361 - 35,843,680 (+)Ensembl
GRCm38.p6 Ensembl1535,834,215 - 35,843,534 (+)Ensembl
Ensembl Acc Id: ENSMUST00000228338
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1535,371,695 - 35,439,617 (+)Ensembl
GRCm38.p6 Ensembl1535,371,549 - 35,439,471 (+)Ensembl
Ensembl Acc Id: ENSMUST00000228738
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1535,871,868 - 35,876,121 (+)Ensembl
GRCm38.p6 Ensembl1535,871,722 - 35,875,975 (+)Ensembl
RefSeq Acc Id: NM_177151   ⟹   NP_796125
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391535,371,264 - 35,931,375 (+)NCBI
GRCm381535,371,118 - 35,931,229 (+)NCBI
MGSCv371535,301,301 - 35,860,984 (+)RGD
Celera1535,993,318 - 36,557,254 (+)RGD
cM Map15 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_796125 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH89558 (Get FASTA)   NCBI Sequence Viewer  
  BAB26477 (Get FASTA)   NCBI Sequence Viewer  
  BAC65584 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000045490
  ENSMUSP00000045490.8
  ENSMUSP00000153856.2
GenBank Protein Q80TY5 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_796125   ⟸   NM_177151
- UniProtKB: Q80TY5 (UniProtKB/Swiss-Prot),   E9QKX5 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000045490   ⟸   ENSMUST00000048646
Ensembl Acc Id: ENSMUSP00000153856   ⟸   ENSMUST00000227455
Protein Domains
Chorein N-terminal   SHR-BD

Promoters
RGD ID:6826606
Promoter ID:MM_KWN:18245
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000048646,   NM_177151,   UC007VMD.1,   UC007VME.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361535,300,811 - 35,301,332 (+)MPROMDB
RGD ID:8683574
Promoter ID:EPDNEW_M19818
Type:initiation region
Name:Vps13b_1
Description:Mus musculus vacuolar protein sorting 13B , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M19819  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381535,371,538 - 35,371,598EPDNEW
RGD ID:8683576
Promoter ID:EPDNEW_M19819
Type:single initiation site
Name:Vps13b_2
Description:Mus musculus vacuolar protein sorting 13B , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M19818  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381535,374,603 - 35,374,663EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1916380 AgrOrtholog
Ensembl Genes ENSMUSG00000037646 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000048646 ENTREZGENE
  ENSMUST00000048646.9 UniProtKB/Swiss-Prot
  ENSMUST00000227455.2 UniProtKB/TrEMBL
InterPro SHR-BD UniProtKB/Swiss-Prot
  VPS13_C UniProtKB/Swiss-Prot
  VPS13_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VPS13B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:666173 UniProtKB/Swiss-Prot
MGD MGI:1916380 ENTREZGENE
NCBI Gene Vps13b ENTREZGENE
PANTHER PTHR12517 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 13B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Chorein_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SHR-BD UniProtKB/Swiss-Prot
  VPS13_C UniProtKB/Swiss-Prot
PhenoGen Vps13b PhenoGen
UniProt A0A2I3BPN3_MOUSE UniProtKB/TrEMBL
  E9QKX5 ENTREZGENE
  Q5EBI7_MOUSE UniProtKB/TrEMBL
  Q80TY5 ENTREZGENE
  Q9D714_MOUSE UniProtKB/TrEMBL
  VP13B_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary E9QKX5 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-08-26 Vps13b  vacuolar protein sorting 13B  Coh1  Cohen syndrome 1  Symbol and/or name updated 27372883 PROVISIONAL
2024-08-21 Coh1  Cohen syndrome 1  Vps13b  vacuolar protein sorting 13B  Symbol and/or name change 5135510 APPROVED
2024-08-21 Vps13b  vacuolar protein sorting 13B  Vps13b  vacuolar protein sorting 13B (yeast)  Symbol and/or name change 5135510 APPROVED
2024-08-21 Vps13b  vacuolar protein sorting 13B (yeast)  Vps13b  vacuolar protein sorting 13B  Symbol and/or name change 5135510 APPROVED
2016-04-01 Vps13b  vacuolar protein sorting 13B  2310042E16Rik  RIKEN cDNA 2310042E16 gene  Data merged from RGD:1317599 737654 PROVISIONAL
2016-03-21 Vps13b  vacuolar protein sorting 13B    vacuolar protein sorting 13B (yeast)  Symbol and/or name change 5135510 APPROVED