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    VAMP3 vesicle associated membrane protein 3 [ Homo sapiens (human) ]

    Gene ID: 9341, updated on 9-Dec-2024

    Summary

    Official Symbol
    VAMP3provided by HGNC
    Official Full Name
    vesicle associated membrane protein 3provided by HGNC
    Primary source
    HGNC:HGNC:12644
    See related
    Ensembl:ENSG00000049245 MIM:603657; AllianceGenome:HGNC:12644
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CEB
    Summary
    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]
    Expression
    Ubiquitous expression in fat (RPKM 43.9), lung (RPKM 35.7) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See VAMP3 in Genome Data Viewer
    Location:
    1p36.23
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (7771296..7781432)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (7302342..7312478)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (7831356..7841492)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene calmodulin binding transcription activator 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7563077-7563934 Neighboring gene uncharacterized LOC105376691 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7563935-7564790 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7565577-7566214 Neighboring gene MPRA-validated peak35 silencer Neighboring gene MPRA-validated peak36 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7594027-7595006 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7598278-7598983 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7643497-7643996 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7646449-7647169 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7655704-7656204 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7669039-7669576 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7670114-7670651 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7669577-7670113 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7668502-7669038 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7672975-7673506 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7673507-7674037 Neighboring gene MPRA-validated peak37 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7685250-7685750 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7695174-7696155 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7700515-7701015 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7702117-7703085 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7703871-7704371 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7710763-7711264 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7711265-7711764 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7717029-7717568 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7723269-7723770 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 90 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:7729239-7730085 Neighboring gene translation initiation factor IF-2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 185 Neighboring gene MPRA-validated peak40 silencer Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:7798026-7799225 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:7831283-7831525 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 186 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:7830560-7831256 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 187 Neighboring gene uncharacterized LOC124903833 Neighboring gene MPRA-validated peak42 silencer Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:7886590-7887789 Neighboring gene NANOG hESC enhancer GRCh37_chr1:7912645-7913333 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:7929285-7930484 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:7935645-7936144 Neighboring gene NANOG hESC enhancer GRCh37_chr1:7970949-7971450 Neighboring gene period circadian regulator 3 Neighboring gene urotensin 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Genome-wide association study of periodontal pathogen colonization.
    EBI GWAS Catalog
    Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
    EBI GWAS Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Nef nef HIV-1 Nef impairs the recruitment of VAMP3-positive endosomes at the site of phagocytosis PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables SNAP receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables syntaxin-1 binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Process Evidence Code Pubs
    involved_in Golgi to plasma membrane protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in SNARE complex assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in calcium-ion regulated exocytosis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to type II interferon IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in exocytosis TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in membrane fusion TAS
    Traceable Author Statement
    more info
    PubMed 
    NOT involved_in mucus secretion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of secretion by cell IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT involved_in positive regulation of immunoglobulin production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of receptor recycling ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in protein-containing complex assembly TAS
    Traceable Author Statement
    more info
    PubMed 
    NOT involved_in regulation of histamine secretion by mast cell IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in retrograde transport, endosome to Golgi IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in substrate adhesion-dependent cell spreading ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in vesicle docking involved in exocytosis TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in vesicle fusion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in vesicle-mediated transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    part_of SNARE complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of SNARE complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell surface IEA
    Inferred from Electronic Annotation
    more info
     
    located_in clathrin-coated endocytic vesicle membrane TAS
    Traceable Author Statement
    more info
     
    located_in clathrin-coated vesicle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in early endosome membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in neuron projection IEA
    Inferred from Electronic Annotation
    more info
     
    located_in perinuclear region of cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in phagocytic vesicle membrane TAS
    Traceable Author Statement
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    located_in recycling endosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in recycling endosome membrane TAS
    Traceable Author Statement
    more info
     
    located_in secretory granule IEA
    Inferred from Electronic Annotation
    more info
     
    located_in synapse IEA
    Inferred from Electronic Annotation
    more info
     
    located_in trans-Golgi network membrane TAS
    Traceable Author Statement
    more info
     
    located_in transport vesicle TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    vesicle-associated membrane protein 3
    Names
    cellubrevin
    synaptobrevin-3

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_004781.4NP_004772.1  vesicle-associated membrane protein 3

      See identical proteins and their annotated locations for NP_004772.1

      Status: REVIEWED

      Source sequence(s)
      BC003570, BC005941
      Consensus CDS
      CCDS88.1
      UniProtKB/Swiss-Prot
      Q15836, Q9BRV4
      UniProtKB/TrEMBL
      Q6FGG2
      Related
      ENSP00000054666.6, ENST00000054666.11
      Conserved Domains (1) summary
      cd15870
      Location:1375
      R-SNARE_VAMP2; SNARE motif of VAMP2

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      7771296..7781432
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      7302342..7312478
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)