Vamp4 (vesicle-associated membrane protein 4) - Rat Genome Database

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Gene: Vamp4 (vesicle-associated membrane protein 4) Rattus norvegicus
Analyze
Symbol: Vamp4
Name: vesicle-associated membrane protein 4
RGD ID: 1309753
Description: Involved in regulation of synaptic vesicle endocytosis and synaptic vesicle to endosome fusion. Predicted to be located in Golgi apparatus; cell surface; and phagocytic vesicle. Predicted to be part of SNARE complex. Predicted to be active in presynaptic endosome membrane and trans-Golgi network. Orthologous to human VAMP4 (vesicle associated membrane protein 4); INTERACTS WITH bisphenol A; flutamide; methapyrilene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC364033
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21374,919,872 - 74,942,791 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1374,919,880 - 74,933,686 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1377,495,346 - 77,520,525 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01378,802,728 - 78,825,319 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01376,062,597 - 76,085,190 (+)NCBIRnor_WKY
Rnor_6.01380,460,699 - 80,483,597 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1380,460,694 - 80,483,600 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01385,352,779 - 85,375,559 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41378,247,189 - 78,269,770 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11378,261,180 - 78,280,664 (+)NCBI
Celera1374,670,256 - 74,692,771 (+)NCBICelera
Cytogenetic Map13q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. VAMP4 Is an Essential Cargo Molecule for Activity-Dependent Bulk Endocytosis. Nicholson-Fish JC, etal., Neuron. 2015 Dec 2;88(5):973-84. doi: 10.1016/j.neuron.2015.10.043. Epub 2015 Nov 19.
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Evidence for early endosome-like fusion of recently endocytosed synaptic vesicles. Rizzoli SO, etal., Traffic. 2006 Sep;7(9):1163-76.
Additional References at PubMed
PMID:12682051   PMID:15689499   PMID:18227281   PMID:18321981   PMID:18713833   PMID:19144319   PMID:19620288   PMID:20582536   PMID:21151919   PMID:22406549   PMID:23677696   PMID:23716698  
PMID:32532887   PMID:34496238  


Genomics

Comparative Map Data
Vamp4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21374,919,872 - 74,942,791 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1374,919,880 - 74,933,686 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1377,495,346 - 77,520,525 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01378,802,728 - 78,825,319 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01376,062,597 - 76,085,190 (+)NCBIRnor_WKY
Rnor_6.01380,460,699 - 80,483,597 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1380,460,694 - 80,483,600 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01385,352,779 - 85,375,559 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41378,247,189 - 78,269,770 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11378,261,180 - 78,280,664 (+)NCBI
Celera1374,670,256 - 74,692,771 (+)NCBICelera
Cytogenetic Map13q22NCBI
VAMP4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381171,700,160 - 171,742,065 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1171,700,160 - 171,742,074 (-)EnsemblGRCh38hg38GRCh38
GRCh371171,669,300 - 171,711,205 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361169,938,783 - 169,977,837 (-)NCBINCBI36Build 36hg18NCBI36
Celera1144,778,698 - 144,820,780 (-)NCBICelera
Cytogenetic Map1q24.3NCBI
HuRef1142,893,046 - 142,935,123 (-)NCBIHuRef
CHM1_11173,091,387 - 173,133,527 (-)NCBICHM1_1
T2T-CHM13v2.01171,056,627 - 171,098,537 (-)NCBIT2T-CHM13v2.0
Vamp4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391162,398,084 - 162,426,651 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1162,398,084 - 162,426,653 (+)EnsemblGRCm39 Ensembl
GRCm381162,570,515 - 162,599,082 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1162,570,515 - 162,599,084 (+)EnsemblGRCm38mm10GRCm38
MGSCv371164,500,959 - 164,529,209 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361164,407,503 - 164,435,753 (+)NCBIMGSCv36mm8
Celera1165,015,226 - 165,045,414 (+)NCBICelera
Cytogenetic Map1H2.1NCBI
cM Map170.29NCBI
Vamp4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540612,223,736 - 12,260,317 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540612,223,736 - 12,260,506 (-)NCBIChiLan1.0ChiLan1.0
VAMP4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11150,903,134 - 150,944,815 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1150,903,134 - 150,944,815 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01147,192,001 - 147,233,945 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
VAMP4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1727,278,200 - 27,303,499 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl727,278,231 - 27,302,225 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha726,797,085 - 26,827,670 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0727,078,744 - 27,107,216 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl727,051,313 - 27,107,216 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1726,900,757 - 26,958,730 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0726,935,355 - 26,993,045 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0727,207,418 - 27,232,436 (+)NCBIUU_Cfam_GSD_1.0
Vamp4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934497,634,092 - 97,669,945 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648115,480,879 - 15,516,945 (+)EnsemblSpeTri2.0
SpeTri2.0NW_00493648115,480,865 - 15,515,851 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VAMP4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9114,138,330 - 114,174,979 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19114,138,350 - 114,174,996 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29125,606,175 - 125,638,921 (-)NCBISscrofa10.2Sscrofa10.2susScr3
VAMP4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12557,381,143 - 57,421,886 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2557,384,757 - 57,421,893 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605559,006,290 - 59,051,034 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vamp4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247719,986,835 - 10,034,112 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Vamp4
133 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:664
Count of miRNA genes:249
Interacting mature miRNAs:341
Transcripts:ENSRNOT00000004243
Prediction methods:Microtar, Miranda, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
4889861Pur29Proteinuria QTL 2913.80.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
724564Uae11Urinary albumin excretion QTL 115.7urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)135949252277046890Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)135987440885581182Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
8655951Rf63Renal function QTL 6312.2blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)136906051977046890Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)136906051986800898Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136906051986800898Rat
1300166Kidm6Kidney mass QTL 63.93kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)136906051986800898Rat
11530006Niddm72Non-insulin dependent diabetes mellitus QTL 720.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)137402391880753406Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)137486211785581182Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat

Markers in Region
RH134702  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21374,942,533 - 74,942,730 (+)MAPPERmRatBN7.2
Rnor_6.01380,483,340 - 80,483,536NCBIRnor6.0
Rnor_5.01385,375,420 - 85,375,616UniSTSRnor5.0
RGSC_v3.41378,269,639 - 78,269,835UniSTSRGSC3.4
Celera1374,692,640 - 74,692,836UniSTS
RH 3.4 Map13456.2UniSTS
Cytogenetic Map13q22UniSTS
RH139431  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21374,926,254 - 74,926,403 (+)MAPPERmRatBN7.2
Rnor_6.01380,467,061 - 80,467,209NCBIRnor6.0
Rnor_5.01385,359,141 - 85,359,289UniSTSRnor5.0
RGSC_v3.41378,253,360 - 78,253,508UniSTSRGSC3.4
Celera1374,676,427 - 74,676,575UniSTS
RH 3.4 Map13455.4UniSTS
Cytogenetic Map13q22UniSTS
RH139439  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21374,939,042 - 74,939,287 (+)MAPPERmRatBN7.2
Rnor_6.01380,479,849 - 80,480,093NCBIRnor6.0
Rnor_5.01385,371,929 - 85,372,173UniSTSRnor5.0
RGSC_v3.41378,266,148 - 78,266,392UniSTSRGSC3.4
Celera1374,689,149 - 74,689,393UniSTS
RH 3.4 Map13456.7UniSTS
Cytogenetic Map13q22UniSTS
RH139631  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21374,939,078 - 74,939,287 (+)MAPPERmRatBN7.2
Rnor_6.01380,479,885 - 80,480,093NCBIRnor6.0
Rnor_5.01385,371,965 - 85,372,173UniSTSRnor5.0
RGSC_v3.41378,266,184 - 78,266,392UniSTSRGSC3.4
Celera1374,689,185 - 74,689,393UniSTS
RH 3.4 Map13455.4UniSTS
Cytogenetic Map13q22UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 6 14 4 18 4 74 31 41 11
Low 37 43 37 1 37 8 11 4 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004243   ⟹   ENSRNOP00000004243
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1380,460,890 - 80,483,471 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076324   ⟹   ENSRNOP00000068349
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1374,919,880 - 74,926,159 (+)Ensembl
Rnor_6.0 Ensembl1380,464,348 - 80,467,272 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076601
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1380,460,786 - 80,483,600 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076922   ⟹   ENSRNOP00000068049
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1374,919,883 - 74,933,686 (+)Ensembl
Rnor_6.0 Ensembl1380,460,694 - 80,479,449 (+)Ensembl
RefSeq Acc Id: NM_001108856   ⟹   NP_001102326
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21374,920,083 - 74,942,665 (+)NCBI
Rnor_6.01380,460,890 - 80,483,471 (+)NCBI
Rnor_5.01385,352,779 - 85,375,559 (+)NCBI
RGSC_v3.41378,247,189 - 78,269,770 (+)RGD
Celera1374,670,256 - 74,692,771 (+)RGD
Sequence:
RefSeq Acc Id: XM_006250184   ⟹   XP_006250246
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21374,919,872 - 74,942,673 (+)NCBI
Rnor_6.01380,460,699 - 80,483,471 (+)NCBI
Rnor_5.01385,352,779 - 85,375,559 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006250186   ⟹   XP_006250248
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21374,919,878 - 74,942,791 (+)NCBI
Rnor_6.01380,460,707 - 80,483,597 (+)NCBI
Rnor_5.01385,352,779 - 85,375,559 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039090952   ⟹   XP_038946880
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21374,920,423 - 74,942,673 (+)NCBI
RefSeq Acc Id: XM_039090953   ⟹   XP_038946881
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21374,919,878 - 74,933,408 (+)NCBI
RefSeq Acc Id: XR_005492263
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21374,919,872 - 74,942,673 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001102326   ⟸   NM_001108856
- UniProtKB: D4A560 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250246   ⟸   XM_006250184
- Peptide Label: isoform X1
- UniProtKB: A0A096MJ99 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250248   ⟸   XM_006250186
- Peptide Label: isoform X2
- UniProtKB: D4A560 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004243   ⟸   ENSRNOT00000004243
RefSeq Acc Id: ENSRNOP00000068049   ⟸   ENSRNOT00000076922
RefSeq Acc Id: ENSRNOP00000068349   ⟸   ENSRNOT00000076324
RefSeq Acc Id: XP_038946881   ⟸   XM_039090953
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038946880   ⟸   XM_039090952
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A096MJ99-F1-model_v2 AlphaFold A0A096MJ99 1-141 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13698949
Promoter ID:EPDNEW_R9465
Type:multiple initiation site
Name:Vamp4_1
Description:vesicle-associated membrane protein 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01380,460,691 - 80,460,751EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309753 AgrOrtholog
BioCyc Gene G2FUF-17645 BioCyc
Ensembl Genes ENSRNOG00000003071 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000068049.2 UniProtKB/TrEMBL
  ENSRNOP00000068349.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000076324.2 UniProtKB/TrEMBL
  ENSRNOT00000076922.3 UniProtKB/TrEMBL
InterPro Synaptobrevin UniProtKB/TrEMBL
  V_SNARE_CC UniProtKB/TrEMBL
  VAMP4 UniProtKB/TrEMBL
NCBI Gene 364033 ENTREZGENE
PANTHER PTHR46897 UniProtKB/TrEMBL
Pfam Synaptobrevin UniProtKB/TrEMBL
PhenoGen Vamp4 PhenoGen
PRINTS SYNAPTOBREVN UniProtKB/TrEMBL
PROSITE SYNAPTOBREVIN UniProtKB/TrEMBL
  V_SNARE UniProtKB/TrEMBL
UniProt A0A096MJ99 ENTREZGENE, UniProtKB/TrEMBL
  A0A096MK21_RAT UniProtKB/TrEMBL
  D4A560 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Vamp4  vesicle-associated membrane protein 4   Vamp4_predicted  vesicle-associated membrane protein 4 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Vamp4_predicted  vesicle-associated membrane protein 4 (predicted)      Symbol and Name status set to approved 70820 APPROVED