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VAMP1 Gene

protein-coding   GIFtS: 60

GC12M006425
vesicle-associated membrane protein 1 (synaptobrevin 1)
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: SYB1)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
DKFZp686H12131 2
SYB1 2, 3, 5
Synaptobrevin-1 3
VAMP-1 1, 2, 3
Descriptions
synaptobrevin 1 2
vesicle-associated membrane protein 1 2
vesicle-associated membrane protein 1 (synaptobrevin 1) 2
External Ids
HGNC: 126421
Entrez Gene: 68432
UniProtKB: P237633
Ensembl: ENSG000001391907
Search outside databases for aliases for VAMP1 gene

Previous GC identifers: GC12M006426 GC12M006546 GC12M006441

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

EntrezGene summary for VAMP1:
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. VAMP1 is a member of the vesicle-associated membrane protein
(VAMP)/synaptobrevin family. Multiple alternative splice variants that encode proteins with
alternative carboxy ends have been described, but the full-length nature of some variants has not
been defined. [provided by RefSeq]

UniProtKB/Swiss-Prot: VAMP1_HUMAN, P23763
Function: Involved in the targeting and/or fusion of transport vesicles to their target membrane

Gene Wiki entry for VAMP1

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the VAMP1 gene  

Entrez Gene cytogenetic band: 12p   Ensembl cytogenetic band:  12p13.31   HGNC cytogenetic band: 12p

VAMP1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12M006425:     (about GC identifiers)

Start:
6,440,603 bp from pter
End:
6,450,326 bp from pter
Size:
9,724 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000012.10  NT_009759.15  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: VAMP1_HUMAN, P23763 (See protein sequence)
Recommended Name: Vesicle-associated membrane protein 1  
Size: 118 amino acids; 12902 Da
Subunit: Interacts with VAPA and VAPB
Subcellular location: Isoform 1: Cytoplasmic vesicle, secretory vesicle, synaptic vesicle membrane;
Single-pass type IV membrane protein (By similarity). Cell junction, synapse, synaptosome (By
similarity)
Subcellular location: Isoform 2: Cytoplasmic vesicle membrane; Single-pass type IV membrane protein
(By similarity). Cell junction, synapse, synaptosome (By similarity)
Subcellular location: Isoform 3: Mitochondrion outer membrane; Single-pass type IV membrane protein
Secondary accessions: O75468 Q15857 Q6FG94 Q8IVC9
Alternative splicing: 3 isoforms:  P23763-1   P23763-3   P23763-2   

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins (3 alternative transcripts): 
    NP_055046.1  NP_058439.1  NP_954740.1  


    ENSEMBL proteins: 
    ENSP00000355122 ENSP00000380148 ENSP00000347664 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (VAMP1, Synaptobrevin)
    Human Recombinant Proteins from Abnova (VAMP1)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    5/9 Gene Ontology (GO) cellular component terms (links to tree view) (see all 9 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005739 mitochondrion IEA--
    GO:0005741 mitochondrial outer membrane IEA--
    GO:0005887 integral to plasma membrane TAS1976629
    GO:0016020 membrane IEA--
    GO:0019717 synaptosome IEA--
    About this table

    Antibodies for VAMP1: 
    Browse Antibodies Central at Invitrogen
    Millipore Mono- and Polyclonal Antibodies for the study of VAMP1
    Sigma-Aldrich Antibodies for VAMP1
    R&D Systems Antibodies for VAMP1 (VAMP-1)
    Antibodies from Abcam (VAMP1, Synaptobrevin), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (VAMP1)
    Novus Biologicals Antibodies for VAMP1

    Assays for VAMP1: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    2 InterPro domains/families:
     IPR016444 Synaptobrevin_met/fun
     IPR001388 Synaptobrevin


       GeneDecks  VAMP1 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry P23763

    ProtoNet protein and cluster: P23763

    1 Blocks protein family: IPB001388 Synaptobrevin

    UniProtKB/Swiss-Prot: VAMP1_HUMAN, P23763
    Similarity: Belongs to the synaptobrevin family
    Similarity: Contains 1 v-SNARE coiled-coil homology domain

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (VAMP1)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (VAMP1)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 3): NM_016830

                  Applied Biosystems Silencer® siRNAs for VAMP1

                  Sigma-Aldrich siRNA for VAMP1  
                         Sigma-Aldrich shRNA for VAMP1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for VAMP1
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 3): NM_014231
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 3): NM_014231
                                     untagged cDNA clones in CMV expression vector (see all 3): NM_014231 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_014231

    UniProtKB/Swiss-Prot: VAMP1_HUMAN, P23763
    Function: Involved in the targeting and/or fusion of transport vesicles to their target membrane

    Genatlas biochemistry entry for VAMP1:
    vesicule associated membrane protein 1,synaptobrevin 1,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

    3 MGI mutant phenotypes (inferred from 1 allele(MGI details for Vamp1):

    behavior/neurologicalgrowth/sizelethality-postnatal

    1 Gene Ontology (GO) molecular function term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515 protein binding IPI9920726
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


    1 Kegg Pathway  (Kegg details for VAMP1):
     hsa04130 SNARE interactions in vesicular transport

       GeneDecks  VAMP1 for the pathways selected above  
    About GeneDecksing
     Gene Network CentralTM Interacting Genes and Proteins Network for  VAMP1 


    5/20 Interacting proteins for VAMP1 (ENSP000003551223) via UniProtKB, MINT, and/or STRING (see all 20 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SNAP25ENSP000002549763STRING (score=.995)
    STX1AENSP000002228123STRING (score=.993)
    SNAP23ENSP000002496473STRING (score=.991)
    STX4ENSP000003177143STRING (score=.988)
    STX3ENSP000003385623STRING (score=.951)
    About this table

    1 Gene Ontology (GO) biological process term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016192 vesicle-mediated transport IEA--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for VAMP1
    1 Novoseek chemical compound relationship for VAMP1 gene
    Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    glucose 5.66 1 16516346 (1)
    About this table


    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (VAMP1)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (VAMP1)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 3): NM_016830

                  Sigma-Aldrich siRNA for VAMP1  
                         Sigma-Aldrich shRNA for VAMP1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_014231  NM_016830  NM_199245  

    REFSEQ mRNAs for VAMP1 gene (3 alternative transcripts): 

    NM_014231.3   NM_016830.2   NM_199245.1   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_014231  NM_016830  NM_199245  

                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 3): NM_014231
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 3): NM_014231
                                     untagged cDNA clones in CMV expression vector (see all 3): NM_014231 

    Additional cDNA sequence: 

    AF060538.1 AK289498.1 AK296294.1 AK303137.1 AK309184.1 BC023286.1 CR542214.1 CR542231.1 
    CR749485.1 Z48924.1 

    11 DOTS entries:

    DT.40312062  DT.121214734  DT.97862728  DT.121214702  DT.92438464  DT.95334221  DT.97862736  DT.92438468 
    DT.95143541  DT.95334214  DT.95334215 

    24/134 AceView cDNA sequences (see all 134 ):

    NM_014231 NM_016830 BU608755 CR542214 CR542231 AA764795 AA666312 BM664607 
    NM_199245 AL046810 CA455151 AI023407 AA478494 U25909 AA604792 BQ717992 
    BQ719283 BE673953 CK429429 AF060538 Z48924 AA809273 AI248737 BI752086 

    highest scoring ESTs for VAMP1:

    AF060538 AU127669 AW504767 BC023286 BE246376 BE246448 BE246453 BG913279 BI752086 BI757102 

    Unigene Cluster for VAMP1:

    Vesicle-associated membrane protein 1 (synaptobrevin 1)
    Hs.20021  [show with all ESTs]
    Unigene Representative Sequence: CR749485


    GeneLoc Exon Structure

    3 Ensembl transcripts including schematic representations:
    ENST00000361716  ENST00000396943  ENST00000355479  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    VAMP1 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for VAMP1

    1 / 2 / 3

    8 probe-sets matching VAMP1 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    33780_at2, 3 U95-A 1 1.00 1.00 0.98 0.45 M36200 0.20 1.00 0.72 1

    33779_at2, 3 U95-A 2 1.00 0.97 0.88 1.61 AF060538 1.00 1.00 1.00 1

    213326_at2, 3 U133-A 1 1.00 1.00 -- -- AU150319 0.40 0.67 0.55 1

    207100_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_016830 0.60 1.00 0.82 1

    207101_at2, 3 U133-A 1 1.00 1.00 -- -- NM_016830 0.60 1.00 0.82 1

    213326_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    207100_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    207101_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: TATTCTGAAC

    SOURCE GeneReport for Unigene cluster: Hs.20021

    Expression variation in blood from EXPOLDB for VAMP1

    UniProtKB/Swiss-Prot: VAMP1_HUMAN, P23763
    Tissue specificity: Nervous system, skeletal muscle and adipose tissue

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for VAMP1 gene from 5/11 species (see all 11 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    VAMP11   -- vesicle-associated membrane protein 1 (synaptobrevin more 92.37(n)
    92.37(a)
    486726  XM_543853.2  XP_543853.2 
    chimpanzee
    (Pan troglodytes)
    VAMP11   -- vesicle-associated membrane protein 1 (synaptobrevin more 99.71(n)
    100(a)
    749463  XM_001169040.1  XP_001169040.1 
    cow
    (Bos taurus)
    VAMP11   -- vesicle-associated membrane protein 1 (synaptobrevin more 94.69(n)
    95.58(a)
    513621  NM_001075630.1  NP_001069098.1 
    rat
    (Rattus norvegicus)
    Vamp11   -- vesicle-associated membrane protein 1 93.79(n)
    95.76(a)
    25624  NM_013090.2  NP_037222.2 
    mouse
    (Mus musculus)
    Vamp11, 5 6 (56.00 cM)5
    vesicle-associated membrane protein 11, 5 93.5(n)1
    98.31(a)1
    223171  NM_009496.31  NP_033522.11 
     AF0071675  AI8500705  (see all 18)
    About this table        Species with no ortholog for VAMP1

    ENSEMBL Gene Tree for VAMP1
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for VAMP1 gene
    VAMP22  VAMP32  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/98 NCBI SNPs in VAMP1 are shown (see all 98 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 76)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 12 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs20723761,2
    A,C,F,H,O6450073(+) CCGACC/TACCCC 3 -- ut5113Minor allele frequency- T:0.44NA MN EA EU WA 2228
    rs25347121,2
    A,C,F,H,O6442810(+) GGGCCT/CCAGGA 3 -- ut31 int1 ese37Minor allele frequency- C:0.29NA EU EA WA 548
    rs25347131,2
    A,C,F,H,O6442848(+) GGCAAG/CTGCAC 3 -- ut31 int17Minor allele frequency- C:0.21EU EA WA NA 560
    rs124268151,2
    A,C,F,H6450575(+) CCTCTA/GACTAA 3 -- ng319Minor allele frequency- G:0.20NA MN EA EU WA 1810
    rs10454521,2
    A,C,F,H6442309(-) TTTCCC/TTTCGC 3 -- ut31 int1 trp312Minor allele frequency- T:0.27MN EU EA WA NA 1158
    rs25347221,2
    A,C,F,H6451491(+) tccacG/Taattt 3 -- ng314Minor allele frequency- T:0.32EU EA WA 420
    rs25347171,2
    A,C,F,H6444010(+) GGTCTC/TTCCAT 3 -- ut31 int17Minor allele frequency- T:0.26EU EA WA NA 560
    rs10349691,2
    A,C,F,H6444117(+) AATGCG/TTTGCA 3 -- int1 ut31 ese35Minor allele frequency- T:0.28MN EU EA WA 596
    rs138421,2
    A,C,F,O6442822(-) GCAAGA/TGGTTC 3 -- int1 ut318Minor allele frequency- T:0.48MN NA EA 686
    rs25347211,2
    C,F,H,O6450405(+) TTAGGC/AATTTG 3 -- ng3113Minor allele frequency- A:0.27NA MN EA EU WA 2216
    About this table

    HapMap Linkage Disequilibrium images for VAMP1 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 185880

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/38 PubMed articles for VAMP1 gene (see all 38 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 6843 HGNC: 12642 AceView: VAMP1 Ensembl:ENSG00000139190 euGenes: HUgn6843
    ECgene: VAMP1 H-InvDB: VAMP1
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for VAMP1:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
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     Millipore Immunoassay Services
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     Predesigned and custom siRNAs for VAMP1 Antibodies for VAMP1
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for VAMP1 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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     Search OriGene for VAMP1
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     Antibodies for VAMP1

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