VAMP4 (vesicle associated membrane protein 4) - Rat Genome Database

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Gene: VAMP4 (vesicle associated membrane protein 4) Sus scrofa
Analyze
Symbol: VAMP4
Name: vesicle associated membrane protein 4
RGD ID: 13902591
Description: INVOLVED IN cellular response to interferon-gamma (ortholog); endoplasmic reticulum to Golgi vesicle-mediated transport (ortholog); Golgi to plasma membrane protein transport (ortholog); ASSOCIATED WITH 1q24 Deletion Syndrome (ortholog); gastrointestinal stromal tumor (ortholog); parathyroid carcinoma (ortholog); FOUND IN Golgi apparatus (ortholog); integral component of presynaptic endosome membrane (ortholog); integral component of synaptic vesicle membrane (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: vesicle-associated membrane protein 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9114,138,330 - 114,175,364 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19114,138,350 - 114,174,996 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29125,606,175 - 125,638,921 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:14681463   PMID:15679890  


Genomics

Comparative Map Data
VAMP4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9114,138,330 - 114,175,364 (-)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
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1171,700,160 - 171,742,074 (-)EnsemblGRCh38hg38GRCh38
GRCh381171,700,160 - 171,742,844 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371171,669,300 - 171,711,205 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361169,938,783 - 169,977,837 (-)NCBINCBI36hg18NCBI36
Celera1144,778,698 - 144,820,780 (-)NCBI
Cytogenetic Map1q24.3NCBI
HuRef1142,893,046 - 142,935,123 (-)NCBIHuRef
CHM1_11173,091,387 - 173,133,527 (-)NCBICHM1_1
Vamp4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391162,398,084 - 162,426,651 (+)NCBIGRCm39mm39
GRCm39 Ensembl1162,398,084 - 162,426,653 (+)Ensembl
GRCm381162,570,515 - 162,599,082 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1162,570,515 - 162,599,084 (+)EnsemblGRCm38mm10GRCm38
MGSCv371164,500,959 - 164,529,209 (+)NCBIGRCm37mm9NCBIm37
MGSCv361164,407,503 - 164,435,753 (+)NCBImm8
Celera1165,015,226 - 165,045,414 (+)NCBICelera
Cytogenetic Map1H2.1NCBI
cM Map170.29NCBI
Vamp4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21374,919,872 - 74,942,791 (+)NCBI
Rnor_6.0 Ensembl1380,460,694 - 80,483,600 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01380,460,699 - 80,483,597 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01385,352,779 - 85,375,559 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41378,247,189 - 78,269,770 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11378,261,180 - 78,280,664 (+)NCBI
Celera1374,670,256 - 74,692,771 (+)NCBICelera
Cytogenetic Map13q22NCBI
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_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 (+)NCBI
ROS_Cfam_1.0727,078,744 - 27,107,216 (+)NCBI
UMICH_Zoey_3.1726,900,757 - 26,958,730 (+)NCBI
UNSW_CanFamBas_1.0726,935,355 - 26,993,045 (+)NCBI
UU_Cfam_GSD_1.0727,207,418 - 27,232,436 (+)NCBI
Vamp4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934497,634,092 - 97,669,945 (+)NCBI
SpeTri2.0NW_00493648115,480,865 - 15,515,851 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VAMP4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12557,381,143 - 57,421,886 (+)NCBI
ChlSab1.1 Ensembl2557,384,757 - 57,421,893 (+)Ensembl
Vero_WHO_p1.0NW_02366605559,006,290 - 59,051,034 (+)NCBI
Vamp4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247719,986,835 - 10,034,112 (+)NCBI


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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 1 2 3 4 23 2 2
Low 9 2 1 2 2 1 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000016865   ⟹   ENSSSCP00000016414
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl9114,138,330 - 114,174,976 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000038558   ⟹   ENSSSCP00000046512
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl9114,138,355 - 114,174,968 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000057061   ⟹   ENSSSCP00000032203
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl9114,138,354 - 114,175,364 (-)Ensembl
RefSeq Acc Id: NM_001244707   ⟹   NP_001231636
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.19114,142,246 - 114,174,968 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005653719   ⟹   XP_005653776
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.19114,138,350 - 114,174,996 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013977625   ⟹   XP_013833079
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.19114,138,350 - 114,174,286 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021102024   ⟹   XP_020957683
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.19114,138,350 - 114,174,730 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001231636 (Get FASTA)   NCBI Sequence Viewer  
  XP_005653776 (Get FASTA)   NCBI Sequence Viewer  
  XP_013833079 (Get FASTA)   NCBI Sequence Viewer  
  XP_020957683 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005653776   ⟸   XM_005653719
- Peptide Label: isoform X2
- UniProtKB: F1S7S9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020957683   ⟸   XM_021102024
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013833079   ⟸   XM_013977625
- Peptide Label: isoform X1
- UniProtKB: A0A286ZKW8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001231636   ⟸   NM_001244707
- UniProtKB: A0A286ZKW8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000016414   ⟸   ENSSSCT00000016865
RefSeq Acc Id: ENSSSCP00000046512   ⟸   ENSSSCT00000038558
RefSeq Acc Id: ENSSSCP00000032203   ⟸   ENSSSCT00000057061

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000015482 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070017533 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000016414 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000032203 UniProtKB/TrEMBL
  ENSSSCP00000046512 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00070028935 UniProtKB/TrEMBL
  ENSSSCP00070028938 UniProtKB/TrEMBL
  ENSSSCP00070028940 UniProtKB/TrEMBL
  ENSSSCP00070028943 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000016865 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000038558 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000057061 UniProtKB/TrEMBL
  ENSSSCT00070034639 UniProtKB/TrEMBL
  ENSSSCT00070034642 UniProtKB/TrEMBL
  ENSSSCT00070034644 UniProtKB/TrEMBL
  ENSSSCT00070034649 UniProtKB/TrEMBL
InterPro Synaptobrevin UniProtKB/TrEMBL
  V_SNARE_CC UniProtKB/TrEMBL
  VAMP4 UniProtKB/TrEMBL
KEGG Report ssc:100512732 UniProtKB/TrEMBL
NCBI Gene VAMP4 ENTREZGENE
PANTHER PTHR46897 UniProtKB/TrEMBL
Pfam Synaptobrevin UniProtKB/TrEMBL
PRINTS SYNAPTOBREVN UniProtKB/TrEMBL
PROSITE SYNAPTOBREVIN UniProtKB/TrEMBL
  V_SNARE UniProtKB/TrEMBL
UniProt A0A286ZKW8 ENTREZGENE, UniProtKB/TrEMBL
  A0A480C275_PIG UniProtKB/TrEMBL
  A0A4X1UG17_PIG UniProtKB/TrEMBL
  A0A4X1ULC8_PIG UniProtKB/TrEMBL
  F1S7S9 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:94794 ENTREZGENE