Free for academic non-profit institutions. Other users need a Commercial license

Aliases for VAMP3 Gene

Aliases for VAMP3 Gene

  • Vesicle Associated Membrane Protein 3 2 3 5
  • Cellubrevin 2 3 4
  • Synaptobrevin-3 3 4
  • VAMP-3 3 4
  • CEB 3 4
  • Vesicle-Associated Membrane Protein 3 3
  • SYB3 4

External Ids for VAMP3 Gene

Previous GeneCards Identifiers for VAMP3 Gene

  • GC01P007413
  • GC01P007640
  • GC01P007540
  • GC01P006979

Summaries for VAMP3 Gene

Entrez Gene Summary for VAMP3 Gene

  • Synaptobrevins/VAMPs, syntaxins, and the 25-kD synaptosomal-associated protein are the main components of a protein complex involved in the docking and/or fusion of synaptic vesicles with the presynaptic membrane. This gene is a member of the vesicle-associated membrane protein (VAMP)/synaptobrevin family. Because of its high homology to other known VAMPs, its broad tissue distribution, and its subcellular localization, the protein encoded by this gene was shown to be the human equivalent of the rodent cellubrevin. In platelets the protein resides on a compartment that is not mobilized to the plasma membrane on calcium or thrombin stimulation. [provided by RefSeq, Jul 2008]

GeneCards Summary for VAMP3 Gene

VAMP3 (Vesicle Associated Membrane Protein 3) is a Protein Coding gene. Diseases associated with VAMP3 include Tetanus and Primary Bacterial Infectious Disease. Among its related pathways are Innate Immune System and Nicotine Pathway (Dopaminergic Neuron), Pharmacodynamics. Gene Ontology (GO) annotations related to this gene include SNARE binding and syntaxin-1 binding. An important paralog of this gene is VAMP2.

UniProtKB/Swiss-Prot for VAMP3 Gene

  • SNARE involved in vesicular transport from the late endosomes to the trans-Golgi network.

Gene Wiki entry for VAMP3 Gene

Additional gene information for VAMP3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VAMP3 Gene

Genomics for VAMP3 Gene

GeneHancer (GH) Regulatory Elements for VAMP3 Gene

Promoters and enhancers for VAMP3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01I007770 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 558.8 +0.1 53 2.3 HDGF FOXA2 PKNOX1 ARID4B SIN3A DMAP1 YY1 POLR2B ZNF766 ZNF207 VAMP3 ENSG00000269925 UTS2 ENSG00000270171 PARK7
GH01I007703 Enhancer 1.5 FANTOM5 Ensembl ENCODE 11 -66.4 -66391 2.3 ATF1 ARNT ZNF121 GLIS2 KLF7 FOS ATF7 SP3 SP5 NFYC LOC105376689 PER3 ENSG00000270171 VAMP3 SLC45A1 ENSG00000236266 TNFRSF9 CAMTA1
GH01I007782 Promoter/Enhancer 2.2 EPDnew FANTOM5 Ensembl ENCODE 5.7 +12.9 12896 2.4 PKNOX1 CLOCK SMAD1 ATF1 ARNT SIN3A ZNF121 GLIS2 ZNF416 FOS PER3 VAMP3 UTS2 ENSG00000269925
GH01I007678 Enhancer 1.1 Ensembl ENCODE 11.3 -91.1 -91050 3.3 ELF3 FOXA2 KLF17 RAD21 THRB RARA ZNF335 EGR2 SP3 SP5 ENSG00000270171 VAMP3 PER3 CAMTA1 GC01P007609
GH01I007993 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 8.8 +222.8 222781 1.8 BACH1 ZBTB40 BATF IRF4 ZNF121 ZNF366 NFATC1 ATF7 ZSCAN29 ETV6 ENSG00000238290 PARK7 ERRFI1 SLC45A1 TNFRSF9 PER3 VAMP3 ENSG00000284747 ENSG00000284716
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around VAMP3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the VAMP3 gene promoter:

Genomic Locations for VAMP3 Gene

Genomic Locations for VAMP3 Gene
10,164 bases
Plus strand

Genomic View for VAMP3 Gene

Genes around VAMP3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VAMP3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VAMP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VAMP3 Gene

Proteins for VAMP3 Gene

  • Protein details for VAMP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Vesicle-associated membrane protein 3
    Protein Accession:
    Secondary Accessions:
    • Q9BRV4

    Protein attributes for VAMP3 Gene

    100 amino acids
    Molecular mass:
    11309 Da
    Quaternary structure:
    • Interacts with BVES (via the C-terminus cytoplasmic tail). Interacts with BCAP31; involved in VAMP3 export from the endoplasmic reticulum.

neXtProt entry for VAMP3 Gene

Post-translational modifications for VAMP3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for VAMP3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for VAMP3 Gene

Domains & Families for VAMP3 Gene

Gene Families for VAMP3 Gene

Human Protein Atlas (HPA):
  • Cancer-related genes
  • Predicted membrane proteins

Protein Domains for VAMP3 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the synaptobrevin family.
  • Belongs to the synaptobrevin family.
genes like me logo Genes that share domains with VAMP3: view

Function for VAMP3 Gene

Molecular function for VAMP3 Gene

UniProtKB/Swiss-Prot Function:
SNARE involved in vesicular transport from the late endosomes to the trans-Golgi network.

Phenotypes From GWAS Catalog for VAMP3 Gene

Gene Ontology (GO) - Molecular Function for VAMP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000149 SNARE binding IBA --
GO:0005484 SNAP receptor activity IBA --
GO:0005515 protein binding IPI 12130530
GO:0017075 syntaxin-1 binding IEA --
genes like me logo Genes that share ontologies with VAMP3: view
genes like me logo Genes that share phenotypes with VAMP3: view

Animal Models for VAMP3 Gene

MGI Knock Outs for VAMP3:

Animal Model Products

miRNA for VAMP3 Gene

miRTarBase miRNAs that target VAMP3

Clone Products

  • Addgene plasmids for VAMP3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for VAMP3 Gene

Localization for VAMP3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for VAMP3 Gene

Membrane; Single-pass type IV membrane protein. Cell junction, synapse, synaptosome.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for VAMP3 gene
Compartment Confidence
plasma membrane 5
cytosol 5
golgi apparatus 5
endosome 5
extracellular 2
lysosome 2
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for VAMP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IDA 24055037
GO:0005829 cytosol IEA,IDA 22589474
GO:0005886 plasma membrane TAS,IEA --
GO:0009986 cell surface IEA --
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with VAMP3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for VAMP3 Gene

Pathways & Interactions for VAMP3 Gene

genes like me logo Genes that share pathways with VAMP3: view

Pathways by source for VAMP3 Gene

Gene Ontology (GO) - Biological Process for VAMP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001921 positive regulation of receptor recycling ISS,IEA --
GO:0002479 antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent TAS --
GO:0006461 protein complex assembly IEA,TAS 9885218
GO:0006810 transport IEA --
GO:0006887 exocytosis TAS 9885218
genes like me logo Genes that share ontologies with VAMP3: view

No data available for SIGNOR curated interactions for VAMP3 Gene

Drugs & Compounds for VAMP3 Gene

(3) Drugs for VAMP3 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(2) Additional Compounds for VAMP3 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with VAMP3: view

Transcripts for VAMP3 Gene

Unigene Clusters for VAMP3 Gene

Vesicle-associated membrane protein 3:
Representative Sequences:

Clone Products

  • Addgene plasmids for VAMP3

Alternative Splicing Database (ASD) splice patterns (SP) for VAMP3 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b · 5c · 5d ^ 6 ^ 7
SP1: - - - - -
SP2: - - - -
SP3: - - -
SP4: -
SP5: - - - - - - - - -
SP6: - - - -
SP7: - - - - - -
SP8: -

Relevant External Links for VAMP3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for VAMP3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for VAMP3 Gene

Protein differential expression in normal tissues from HIPED for VAMP3 Gene

This gene is overexpressed in Brain (25.6) and Nasal epithelium (10.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for VAMP3 Gene

Protein tissue co-expression partners for VAMP3 Gene

NURSA nuclear receptor signaling pathways regulating expression of VAMP3 Gene:


SOURCE GeneReport for Unigene cluster for VAMP3 Gene:


Evidence on tissue expression from TISSUES for VAMP3 Gene

  • Nervous system(4.8)
  • Kidney(4.7)
  • Blood(4.4)
  • Liver(4.3)
  • Lung(3.6)
  • Skin(3)
  • Intestine(2.9)
  • Muscle(2.4)
  • Heart(2.3)
  • Adrenal gland(2.2)
genes like me logo Genes that share expression patterns with VAMP3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for VAMP3 Gene

Orthologs for VAMP3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for VAMP3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia VAMP3 33 34
  • 99.67 (n)
(Bos Taurus)
Mammalia VAMP3 33 34
  • 87.75 (n)
(Rattus norvegicus)
Mammalia Vamp3 33
  • 86.99 (n)
(Mus musculus)
Mammalia Vamp3 33 16 34
  • 86.18 (n)
(Canis familiaris)
Mammalia VAMP3 33 34
  • 85.71 (n)
(Monodelphis domestica)
Mammalia -- 34
  • 83 (a)
-- 34
  • 70 (a)
(Gallus gallus)
Aves VAMP3 33 34
  • 82.41 (n)
(Anolis carolinensis)
Reptilia VAMP3 34
  • 82 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia vamp3 33
  • 74.07 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.16507 33
(Danio rerio)
Actinopterygii vamp3 33 34
  • 76.32 (n)
fruit fly
(Drosophila melanogaster)
Insecta Syb 34
  • 36 (a)
n-syb 34
  • 28 (a)
(Caenorhabditis elegans)
Secernentea snb-1 34
  • 61 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SNC1 34
  • 26 (a)
SNC2 34
  • 26 (a)
NYV1 36
Species where no ortholog for VAMP3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for VAMP3 Gene

Gene Tree for VAMP3 (if available)
Gene Tree for VAMP3 (if available)

Paralogs for VAMP3 Gene

Paralogs for VAMP3 Gene

(6) SIMAP similar genes for VAMP3 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with VAMP3: view

Variants for VAMP3 Gene

Sequence variations from dbSNP and Humsavar for VAMP3 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000046262 -- 7,770,773(+) G/A upstream_transcript_variant
rs1000222007 -- 7,771,767(+) T/G intron_variant
rs1000310433 -- 7,776,034(+) G/T intron_variant
rs1000508107 -- 7,770,769(+) A/G upstream_transcript_variant
rs1000723448 -- 7,780,935(+) A/G 3_prime_UTR_variant, genic_downstream_transcript_variant

Variation tolerance for VAMP3 Gene

Residual Variation Intolerance Score: 39.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.16; 3.62% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for VAMP3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for VAMP3 Gene

Disorders for VAMP3 Gene

MalaCards: The human disease database

(2) MalaCards diseases for VAMP3 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
  • clostridial tetanus
primary bacterial infectious disease
- elite association - COSMIC cancer census association via MalaCards
Search VAMP3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for VAMP3

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with VAMP3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VAMP3 Gene

Publications for VAMP3 Gene

  1. Identification of a cellubrevin/vesicle associated membrane protein 3 homologue in human platelets. (PMID: 9885218) Bernstein AM … Whiteheart SW (Blood 1999) 2 3 4 22 58
  2. Identification of type 2 diabetes-associated combination of SNPs using support vector machine. (PMID: 20416077) Ban HJ … Park KJ (BMC genetics 2010) 3 44 58
  3. TI-VAMP/VAMP7 and VAMP3/cellubrevin: two v-SNARE proteins involved in specific steps of the autophagy/multivesicular body pathways. (PMID: 19781582) Fader CM … Colombo MI (Biochimica et biophysica acta 2009) 3 22 58
  4. VAMP3, syntaxin-13 and SNAP23 are involved in secretion of matrix metalloproteinases, degradation of the extracellular matrix and cell invasion. (PMID: 19910495) Kean MJ … Coppolino MG (Journal of cell science 2009) 3 22 58
  5. Vesicle associated membrane protein (VAMP)-7 and VAMP-8, but not VAMP-2 or VAMP-3, are required for activation-induced degranulation of mature human mast cells. (PMID: 18253931) Sander LE … Lorentz A (European journal of immunology 2008) 3 22 58

Products for VAMP3 Gene

  • Addgene plasmids for VAMP3

Sources for VAMP3 Gene

Loading form....