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Aliases for VAMP2 Gene

Aliases for VAMP2 Gene

  • Vesicle Associated Membrane Protein 2 2 3 5
  • Synaptobrevin 2 2 3
  • VAMP-2 3 4
  • SYB2 3 4
  • Vesicle-Associated Membrane Protein 2 3
  • Synaptobrevin-2 4

External Ids for VAMP2 Gene

Previous HGNC Symbols for VAMP2 Gene

  • SYB2

Previous GeneCards Identifiers for VAMP2 Gene

  • GC17U990100
  • GC17M009150
  • GC17M008005
  • GC17M008263
  • GC17M007987
  • GC17M008054
  • GC17M007957
  • GC17M008062
  • GC17M008165
  • GC17M008219
  • GC17M008270
  • GC17M008335
  • GC17M008366
  • GC17M008405
  • GC17M008437
  • GC17M008476

Summaries for VAMP2 Gene

Entrez Gene Summary for VAMP2 Gene

  • The protein encoded by this gene is a member of the vesicle-associated membrane protein (VAMP)/synaptobrevin family. Synaptobrevins/VAMPs, syntaxins, and the 25-kD synaptosomal-associated protein SNAP25 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 thought to participate in neurotransmitter release at a step between docking and fusion. The protein forms a stable complex with syntaxin, synaptosomal-associated protein, 25 kD, and synaptotagmin. It also forms a distinct complex with synaptophysin. It is a likely candidate gene for familial infantile myasthenia (FIMG) because of its map location and because it encodes a synaptic vesicle protein of the type that has been implicated in the pathogenesis of FIMG. [provided by RefSeq, Jul 2008]

GeneCards Summary for VAMP2 Gene

VAMP2 (Vesicle Associated Membrane Protein 2) is a Protein Coding gene. Diseases associated with VAMP2 include Tetanus and Primary Bacterial Infectious Disease. Among its related pathways are Neurotransmitter Release Cycle and Uptake and actions of bacterial toxins. Gene Ontology (GO) annotations related to this gene include calmodulin binding and syntaxin binding. An important paralog of this gene is ENSG00000263620.

UniProtKB/Swiss-Prot for VAMP2 Gene

  • Involved in the targeting and/or fusion of transport vesicles to their target membrane. Modulates the gating characteristics of the delayed rectifier voltage-dependent potassium channel KCNB1.

Gene Wiki entry for VAMP2 Gene

Additional gene information for VAMP2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VAMP2 Gene

Genomics for VAMP2 Gene

GeneHancer (GH) Regulatory Elements for VAMP2 Gene

Promoters and enhancers for VAMP2 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
GH17J008149 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 660.2 +6.2 6227 16 CLOCK MLX FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF416 ZNF143 PER1 VAMP2 DVL2 CTC1 PFAS CNTROB POLR2A ENSG00000265749 WRAP53 SNORD10
GH17J008172 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 662.3 -11.4 -11421 5.2 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 E2F8 ZNF416 VAMP2 LOC105371520 GC17M008543 TMEM107 SNORD118 DVL2 CNTROB CTC1 WRAP53 POLR2A
GH17J007833 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 13.2 +323.8 323817 12.5 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF416 KDM6B CHD3 DVL2 PFAS CTC1 WRAP53 CNTROB POLR2A SNORD10 SNORA48
GH17J008185 Promoter/Enhancer 1.9 Ensembl ENCODE dbSUPER 17 -24.8 -24788 5.9 CLOCK MLX ZFP64 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC ENSG00000279152 GC17M008547 GC17M008549 MIR4521 PIR38375 PIR38980 PIR40201 PIR49700 TRI-AAT5-5 TRS-GCT4-3
GH17J007233 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 13.1 +924.9 924887 11.3 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF416 DVL2 GABARAP PHF23 CNTROB SNORD10 WRAP53 NEURL4 POLR2A KIAA0753 KCTD11
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around VAMP2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the VAMP2 gene promoter:
  • ATF-2
  • c-Jun
  • AP-1
  • p53
  • E2F-1
  • E2F
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5

Genomic Locations for VAMP2 Gene

Genomic Locations for VAMP2 Gene
4,400 bases
Minus strand
4,400 bases
Minus strand

Genomic View for VAMP2 Gene

Genes around VAMP2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VAMP2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VAMP2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VAMP2 Gene

Proteins for VAMP2 Gene

  • Protein details for VAMP2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Vesicle-associated membrane protein 2
    Protein Accession:
    Secondary Accessions:
    • P19065
    • Q9BUC2

    Protein attributes for VAMP2 Gene

    116 amino acids
    Molecular mass:
    12663 Da
    Quaternary structure:
    • Interacts (via N-terminus) with KCNB1 (via N-terminus and C-terminus); stimulates the channel inactivation rate of KCNB1 (By similarity). Part of the SNARE core complex containing SNAP25, VAMP2 and STX1A. This complex binds to CPLX1. Interacts with BVES and STX4 (By similarity). Interacts with VAPA and VAPB. Interacts with WDFY2, PRKCZ and PRKCI (PubMed:17313651). Forms a complex with WDFY2 and PRKCZ (PubMed:17313651).

    Three dimensional structures from OCA and Proteopedia for VAMP2 Gene

neXtProt entry for VAMP2 Gene

Post-translational modifications for VAMP2 Gene

  • Phosphorylated by PRKCZ in vitro and this phosphorylation is increased in the presence of WDFY2.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for VAMP2 Gene

No data available for DME Specific Peptides for VAMP2 Gene

Domains & Families for VAMP2 Gene

Gene Families for VAMP2 Gene

Human Protein Atlas (HPA):
  • FDA approved drug targets
  • Predicted membrane proteins
  • Transporters

Protein Domains for VAMP2 Gene

Suggested Antigen Peptide Sequences for VAMP2 Gene

GenScript: Design optimal peptide antigens:

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 VAMP2: view

Function for VAMP2 Gene

Molecular function for VAMP2 Gene

UniProtKB/Swiss-Prot Function:
Involved in the targeting and/or fusion of transport vesicles to their target membrane. Modulates the gating characteristics of the delayed rectifier voltage-dependent potassium channel KCNB1.
GENATLAS Biochemistry:
vesicule associated membrane protein 2,synaptobrevin 2,expressed in neurons forming a synaptic core complex with syntaxin and synaptosome associated proteins,playing a central role in neural exocytosis,soluble N ethylmaleimide-sensitive factor-attachment protein receptor,SNARE protein

Phenotypes From GWAS Catalog for VAMP2 Gene

Gene Ontology (GO) - Molecular Function for VAMP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000149 SNARE binding ISS --
GO:0005484 SNAP receptor activity IBA --
GO:0005515 protein binding IPI 9920726
GO:0005516 calmodulin binding ISS --
GO:0005543 phospholipid binding ISS --
genes like me logo Genes that share ontologies with VAMP2: view
genes like me logo Genes that share phenotypes with VAMP2: view

Animal Models for VAMP2 Gene

MGI Knock Outs for VAMP2:

Animal Model Products

miRNA for VAMP2 Gene

miRTarBase miRNAs that target VAMP2

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for VAMP2 Gene

Localization for VAMP2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for VAMP2 Gene

Cytoplasmic vesicle, secretory vesicle, synaptic vesicle membrane; Single-pass type IV membrane protein. Cell junction, synapse, synaptosome. Cell membrane. Note=Neuronal synaptic vesicles. Colocalizes with PRKCZ and WDFY2 in intracellular vesicles (PubMed:17313651). {ECO:0000269 PubMed:17313651}.

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 VAMP2 gene
Compartment Confidence
plasma membrane 5
extracellular 5
cytosol 5
golgi apparatus 4
endosome 2
cytoskeleton 1
mitochondrion 1
nucleus 1
endoplasmic reticulum 1
lysosome 1

Gene Ontology (GO) - Cellular Components for VAMP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005802 trans-Golgi network ISS --
GO:0005829 cytosol TAS --
GO:0005886 plasma membrane TAS,ISS --
GO:0005887 integral component of plasma membrane TAS 1976629
GO:0008021 synaptic vesicle TAS 10099709
genes like me logo Genes that share ontologies with VAMP2: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for VAMP2 Gene

Pathways & Interactions for VAMP2 Gene

genes like me logo Genes that share pathways with VAMP2: view

Gene Ontology (GO) - Biological Process for VAMP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006887 exocytosis TAS 10099709
GO:0006892 post-Golgi vesicle-mediated transport TAS --
GO:0006906 vesicle fusion IBA --
GO:0007269 neurotransmitter secretion TAS --
GO:0009749 response to glucose ISS --
genes like me logo Genes that share ontologies with VAMP2: view

No data available for SIGNOR curated interactions for VAMP2 Gene

Drugs & Compounds for VAMP2 Gene

(11) Drugs for VAMP2 Gene - From: DrugBank, DGIdb, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Botulinum Toxin Type B Approved, Investigational Pharma binder, Target 0

(6) Additional Compounds for VAMP2 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with VAMP2: view

Transcripts for VAMP2 Gene

mRNA/cDNA for VAMP2 Gene

Unigene Clusters for VAMP2 Gene

Vesicle-associated membrane protein 2 (synaptobrevin 2):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for VAMP2 Gene

No ASD Table

Relevant External Links for VAMP2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for VAMP2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for VAMP2 Gene

Protein differential expression in normal tissues from HIPED for VAMP2 Gene

This gene is overexpressed in Brain (45.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for VAMP2 Gene

NURSA nuclear receptor signaling pathways regulating expression of VAMP2 Gene:


SOURCE GeneReport for Unigene cluster for VAMP2 Gene:


mRNA Expression by UniProt/SwissProt for VAMP2 Gene:

Tissue specificity: Nervous system and skeletal muscle.

Evidence on tissue expression from TISSUES for VAMP2 Gene

  • Nervous system(5)
  • Blood(4.3)
  • Eye(3.3)
  • Adrenal gland(3)
  • Muscle(3)
  • Pancreas(3)
  • Kidney(2.6)
  • Heart(2.1)
genes like me logo Genes that share expression patterns with VAMP2: view

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for VAMP2 Gene

Orthologs for VAMP2 Gene

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

Orthologs for VAMP2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia VAMP2 34 33
  • 99.71 (n)
(Canis familiaris)
Mammalia VAMP2 33
  • 96.26 (n)
(Mus musculus)
Mammalia Vamp2 16 34 33
  • 94.25 (n)
(Bos Taurus)
Mammalia VAMP2 34 33
  • 94.25 (n)
(Monodelphis domestica)
Mammalia -- 34
  • 94 (a)
(Rattus norvegicus)
Mammalia Vamp2 33
  • 93.68 (n)
(Gallus gallus)
Aves -- 34
  • 79 (a)
VAMP2 33
  • 78.99 (n)
(Anolis carolinensis)
Reptilia -- 34
  • 97 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia vamp2 33
  • 83.33 (n)
MGC75977 33
African clawed frog
(Xenopus laevis)
Amphibia vamp2-B-prov 33
(Danio rerio)
Actinopterygii vamp2 34 33
  • 79.35 (n)
fruit fly
(Drosophila melanogaster)
Insecta n-syb 34 33
  • 76.32 (n)
Syb 34
  • 44 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005507 33
  • 72.81 (n)
(Caenorhabditis elegans)
Secernentea snb-1 34
  • 69 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SNC1 36 34
  • 32 (a)
SNC2 34
  • 30 (a)
Species where no ortholog for VAMP2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 VAMP2 Gene

Gene Tree for VAMP2 (if available)
Gene Tree for VAMP2 (if available)
Evolutionary constrained regions (ECRs) for VAMP2: view image

Paralogs for VAMP2 Gene

Paralogs for VAMP2 Gene

(6) SIMAP similar genes for VAMP2 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with VAMP2: view

Variants for VAMP2 Gene

Sequence variations from dbSNP and Humsavar for VAMP2 Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000312665 -- 8,164,382(-) C/G upstream_transcript_variant
rs1001101161 -- 8,162,659(-) G/T 5_prime_UTR_variant, intron_variant
rs1001201123 -- 8,163,277(-) T/A upstream_transcript_variant
rs1002560384 -- 8,162,656(-) A/G 5_prime_UTR_variant, intron_variant
rs1002614996 -- 8,159,498(-) C/A 3_prime_UTR_variant

Structural Variations from Database of Genomic Variants (DGV) for VAMP2 Gene

Variant ID Type Subtype PubMed ID
nsv1964 CNV insertion 18451855
nsv527475 CNV loss 19592680
nsv574336 CNV loss 21841781
nsv833352 CNV loss 17160897
nsv833353 CNV loss 17160897
nsv953826 CNV deletion 24416366

Variation tolerance for VAMP2 Gene

Residual Variation Intolerance Score: 65.5% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for VAMP2 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 for VAMP2 Gene

Disorders for VAMP2 Gene

MalaCards: The human disease database

(4) MalaCards diseases for VAMP2 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
  • clostridial tetanus
primary bacterial infectious disease
infant botulism
  • infant intestinal botulism
attention deficit-hyperactivity disorder
  • adhd
- elite association - COSMIC cancer census association via MalaCards
Search VAMP2 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for VAMP2

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 VAMP2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VAMP2 Gene

Publications for VAMP2 Gene

  1. Structures and chromosomal localizations of two human genes encoding synaptobrevins 1 and 2. (PMID: 1976629) Archer BT … Südhof TC (The Journal of biological chemistry 1990) 2 3 4 22 58
  2. No association between tagging SNPs of SNARE complex genes (STX1A, VAMP2 and SNAP25) and schizophrenia in a Japanese population. (PMID: 18512733) Kawashima K … Iwata N (American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics 2008) 3 22 44 58
  3. Association study between genetic variants at the VAMP2 and VAMP3 loci and bipolar affective disorder. (PMID: 18628682) Abou Jamra R … Schumacher J (Psychiatric genetics 2008) 3 22 44 58
  4. WD-repeat-propeller-FYVE protein, ProF, binds VAMP2 and protein kinase Czeta. (PMID: 17313651) Fritzius T … Moelling K