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Aliases for VAMP1 Gene

Aliases for VAMP1 Gene

  • Vesicle Associated Membrane Protein 1 2 3 5
  • VAMP-1 3 4
  • SYB1 3 4
  • Vesicle-Associated Membrane Protein 1 (Synaptobrevin 1) 3
  • Vesicle-Associated Membrane Protein 1 3
  • Synaptobrevin 1 2
  • Synaptobrevin-1 4
  • SPAX1 3

External Ids for VAMP1 Gene

Previous HGNC Symbols for VAMP1 Gene

  • SYB1

Previous GeneCards Identifiers for VAMP1 Gene

  • GC12M006426
  • GC12M006546
  • GC12M006441
  • GC12M006425
  • GC12M006571

Summaries for VAMP1 Gene

Entrez Gene Summary for VAMP1 Gene

  • Synapotobrevins, syntaxins, and the 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. The protein encoded by this gene is a member of the vesicle-associated membrane protein (VAMP)/synaptobrevin family. Mutations in this gene are associated with autosomal dominant spastic ataxia 1. Multiple alternative splice variants have been described, but the full-length nature of some variants has not been defined. [provided by RefSeq, Jul 2014]

GeneCards Summary for VAMP1 Gene

VAMP1 (Vesicle Associated Membrane Protein 1) is a Protein Coding gene. Diseases associated with VAMP1 include Spastic Ataxia 1, Autosomal Dominant and Spastic Ataxia 1. Among its related pathways are Sertoli-Sertoli Cell Junction Dynamics and HIV Life Cycle. GO annotations related to this gene include SNARE binding and SNAP receptor activity. An important paralog of this gene is VAMP2.

UniProtKB/Swiss-Prot for VAMP1 Gene

  • Involved in the targeting and/or fusion of transport vesicles to their target membrane.

Gene Wiki entry for VAMP1 Gene

Additional gene information for VAMP1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VAMP1 Gene

Genomics for VAMP1 Gene

Regulatory Elements for VAMP1 Gene

Enhancers for VAMP1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12H006459 1.4 Ensembl ENCODE dbSUPER 32.2 +8.8 8844 6 HDGF PKNOX1 ZFP64 BMI1 ZNF143 ZNF207 ATF7 ETV6 RUNX3 CREM ZNF384 ENSG00000219410 CHD4 ENSG00000247853 TAPBPL MRPL51 VAMP1 P3H3 NOP2 SCARNA12
GH12H006530 1.4 ENCODE dbSUPER 22 -66.1 -66109 12 MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC PPARGC1A ZNF384 CHD4 ENSG00000219410 NCAPD2 ENSG00000247853 NOP2 SPSB2 MRPL51 ENSG00000256967 ING4
GH12H006546 1.7 FANTOM5 ENCODE dbSUPER 16.8 -80.9 -80929 10 HDGF PKNOX1 ARID4B GLI4 YY1 GLIS2 ZNF143 FOS KLF7 ZNF548 CHD4 ENSG00000247853 ENSG00000219410 TAPBPL VAMP1 ZNF384 SCARNA11 SCARNA10 NCAPD2 ATN1
GH12H006331 1.8 FANTOM5 ENCODE dbSUPER 13.1 +132.8 132849 12 HDGF PKNOX1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B YY1 SLC30A9 ENSG00000219410 ZNF384 ENSG00000247853 NCAPD2 CHD4 ING4 SPSB2 VAMP1 TAPBPL LTBR
GH12H006344 1.9 FANTOM5 Ensembl ENCODE dbSUPER 12.4 +124.4 124378 3 PKNOX1 ATF1 ARNT SIN3A BRCA1 TCF12 GATA2 ATF7 FOS DEK CHD4 ENSG00000219410 ZNF384 ENSG00000247853 PHB2 LTBR SCNN1A VAMP1 C1RL-AS1 ENSG00000256967
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around VAMP1 on UCSC Golden Path with GeneCards custom track

Promoters for VAMP1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000048308 587 1601 HDGF PKNOX1 MLX ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9

Genomic Location for VAMP1 Gene

Chromosome:
12
Start:
6,462,237 bp from pter
End:
6,470,987 bp from pter
Size:
8,751 bases
Orientation:
Minus strand

Genomic View for VAMP1 Gene

Genes around VAMP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VAMP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VAMP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VAMP1 Gene

Proteins for VAMP1 Gene

  • Protein details for VAMP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P23763-VAMP1_HUMAN
    Recommended name:
    Vesicle-associated membrane protein 1
    Protein Accession:
    P23763
    Secondary Accessions:
    • A8MVP3
    • D3DUR3
    • O75468
    • Q15857
    • Q6FG94
    • Q8IVC9

    Protein attributes for VAMP1 Gene

    Size:
    118 amino acids
    Molecular mass:
    12902 Da
    Quaternary structure:
    • Interacts with VAPA and VAPB.

    Alternative splice isoforms for VAMP1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VAMP1 Gene

Post-translational modifications for VAMP1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for VAMP1 Gene

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for VAMP1 (VAMP1)

No data available for DME Specific Peptides for VAMP1 Gene

Domains & Families for VAMP1 Gene

Gene Families for VAMP1 Gene

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

Protein Domains for VAMP1 Gene

Suggested Antigen Peptide Sequences for VAMP1 Gene

Graphical View of Domain Structure for InterPro Entry

P23763

UniProtKB/Swiss-Prot:

VAMP1_HUMAN :
  • Belongs to the synaptobrevin family.
Family:
  • Belongs to the synaptobrevin family.
genes like me logo Genes that share domains with VAMP1: view

Function for VAMP1 Gene

Molecular function for VAMP1 Gene

GENATLAS Biochemistry:
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
UniProtKB/Swiss-Prot Function:
Involved in the targeting and/or fusion of transport vesicles to their target membrane.

Phenotypes From GWAS Catalog for VAMP1 Gene

Gene Ontology (GO) - Molecular Function for VAMP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005484 SNAP receptor activity IBA --
GO:0005515 protein binding IPI 9920726
GO:0019905 syntaxin binding IBA --
genes like me logo Genes that share ontologies with VAMP1: view
genes like me logo Genes that share phenotypes with VAMP1: view

Human Phenotype Ontology for VAMP1 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for VAMP1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targets and HOMER Transcription for VAMP1 Gene

Localization for VAMP1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for VAMP1 Gene

Isoform 1: Cytoplasmic vesicle, secretory vesicle, synaptic vesicle membrane; Single-pass type IV membrane protein. Cell junction, synapse, synaptosome.
Isoform 2: Cytoplasmic vesicle membrane; Single-pass type IV membrane protein. Cell junction, synapse, synaptosome.
Isoform 3: Mitochondrion outer membrane; Single-pass type IV membrane protein.

Subcellular locations from

COMPARTMENTS
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 VAMP1 gene
Compartment Confidence
plasma membrane 5
mitochondrion 5
cytosol 5
nucleus 1
golgi apparatus 1
endosome 1

Gene Ontology (GO) - Cellular Components for VAMP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005739 mitochondrion IEA --
GO:0005741 mitochondrial outer membrane IEA --
GO:0005829 cytosol TAS --
GO:0005887 integral component of plasma membrane TAS 1976629
GO:0009986 cell surface IEA --
genes like me logo Genes that share ontologies with VAMP1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for VAMP1 Gene

Pathways & Interactions for VAMP1 Gene

genes like me logo Genes that share pathways with VAMP1: view

Pathways by source for VAMP1 Gene

1 KEGG pathway for VAMP1 Gene
1 Qiagen pathway for VAMP1 Gene

Gene Ontology (GO) - Biological Process for VAMP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006887 exocytosis IBA --
GO:0006906 vesicle fusion IBA --
GO:0016192 vesicle-mediated transport IEA --
GO:0035493 SNARE complex assembly IEA --
genes like me logo Genes that share ontologies with VAMP1: view

No data available for SIGNOR curated interactions for VAMP1 Gene

Drugs & Compounds for VAMP1 Gene

(2) Drugs for VAMP1 Gene - From: DrugBank, DGIdb, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Botulinum Toxin Type B Approved Pharma binder, Target 0
genes like me logo Genes that share compounds with VAMP1: view

Transcripts for VAMP1 Gene

Unigene Clusters for VAMP1 Gene

Vesicle-associated membrane protein 1 (synaptobrevin 1):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for VAMP1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for VAMP1 Gene

No ASD Table

Relevant External Links for VAMP1 Gene

GeneLoc Exon Structure for
VAMP1
ECgene alternative splicing isoforms for
VAMP1

Expression for VAMP1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for VAMP1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for VAMP1 Gene

This gene is overexpressed in Nasal epithelium (26.6), Frontal cortex (21.8), and Brain (14.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for VAMP1 Gene



Protein tissue co-expression partners for VAMP1 Gene

NURSA nuclear receptor signaling pathways regulating expression of VAMP1 Gene:

VAMP1

SOURCE GeneReport for Unigene cluster for VAMP1 Gene:

Hs.20021

mRNA Expression by UniProt/SwissProt for VAMP1 Gene:

P23763-VAMP1_HUMAN
Tissue specificity: Nervous system, skeletal muscle and adipose tissue.

Evidence on tissue expression from TISSUES for VAMP1 Gene

  • Nervous system(5)
  • Muscle(4.2)

Phenotype-based relationships between genes and organs from Gene ORGANizer for VAMP1 Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
Systems:
  • digestive
  • integumentary
  • nervous
  • skeletal muscle
  • skeleton
Organs:
Head and neck:
  • brain
  • cranial nerve
  • eye
  • eyelid
  • face
  • head
  • mouth
  • pharynx
Thorax:
  • esophagus
Abdomen:
  • stomach
Limb:
  • foot
  • lower limb
General:
  • peripheral nerve
  • peripheral nervous system
  • skin
  • spinal cord
genes like me logo Genes that share expression patterns with VAMP1: view

Primer Products

No data available for mRNA differential expression in normal tissues for VAMP1 Gene

Orthologs for VAMP1 Gene

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

Orthologs for VAMP1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia VAMP1 33 34
  • 99.72 (n)
cow
(Bos Taurus)
Mammalia VAMP1 34
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Vamp1 33 16 34
  • 93.5 (n)
dog
(Canis familiaris)
Mammalia VAMP1 33 34
  • 92.37 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia VAMP1 34
  • 76 (a)
OneToOne
chicken
(Gallus gallus)
Aves VAMP1 33 34
  • 79.1 (n)
lizard
(Anolis carolinensis)
Reptilia VAMP1 34
  • 79 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia vamp1 33
  • 75.19 (n)
zebrafish
(Danio rerio)
Actinopterygii vamp1 33 34
  • 75.85 (n)
VAMP1 (2 of 2) 34
  • 73 (a)
OneToMany
Dr.19773 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10406 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP007721 33
  • 64.13 (n)
fruit fly
(Drosophila melanogaster)
Insecta Syb 33 34
  • 59.22 (n)
n-syb 34
  • 33 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea snb-1 33 34
  • 72.37 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SNC1 34
  • 30 (a)
ManyToMany
SNC2 34
  • 27 (a)
ManyToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.14705 33
Species where no ortholog for VAMP1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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 VAMP1 Gene

ENSEMBL:
Gene Tree for VAMP1 (if available)
TreeFam:
Gene Tree for VAMP1 (if available)

Paralogs for VAMP1 Gene

Paralogs for VAMP1 Gene

(5) SIMAP similar genes for VAMP1 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with VAMP1: view

Variants for VAMP1 Gene

Sequence variations from dbSNP and Humsavar for VAMP1 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs878854975 Pathogenic 6,464,888(-) GTAAG(G/T)AAGTA intron-variant, reference, missense, splice-donor-variant
rs886042861 Uncertain significance 6,466,289(+) GGCCA(-/G)GGGGA intron-variant, reference, frameshift-variant
rs1000101316 -- 6,465,083(+) CCTCT(C/T)AGAGA intron-variant
rs1000146139 -- 6,462,405(+) GAAAC(A/C)CCACA intron-variant, nc-transcript-variant, downstream-variant-500B, utr-variant-3-prime
rs1000236213 -- 6,469,446(+) GGCTT(G/T)CCCAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for VAMP1 Gene

Variant ID Type Subtype PubMed ID
esv2745471 CNV deletion 23290073
esv2759876 CNV gain 17122850
esv34325 CNV gain 17911159
esv34390 CNV gain 17911159
esv3628406 CNV gain 21293372
nsv1070506 CNV deletion 25765185
nsv442252 CNV gain 18776908
nsv525022 CNV gain 19592680
nsv818881 CNV gain 17921354
nsv8894 CNV gain 18304495

Variation tolerance for VAMP1 Gene

Residual Variation Intolerance Score: 58.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.16; 3.71% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VAMP1 Gene

Human Gene Mutation Database (HGMD)
VAMP1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
VAMP1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VAMP1 Gene

Disorders for VAMP1 Gene

MalaCards: The human disease database

(5) MalaCards diseases for VAMP1 Gene - From: HGMD, OMIM, ClinVar, GeneTests, Orphanet, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
spastic ataxia 1, autosomal dominant
  • autosomal dominant spastic ataxia type 1
spastic ataxia 1
  • spastic ataxia 1, autosomal dominant
presynaptic congenital myasthenic syndromes
  • congenital myasthenic syndromes, presynaptic
spastic ataxia
congenital myasthenic syndrome
  • familial limb-girdle myasthenia
- elite association - COSMIC cancer census association via MalaCards
Search VAMP1 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

VAMP1_HUMAN
  • Spastic ataxia 1, autosomal dominant (SPAX1) [MIM:108600]: An autosomal dominant form of spastic ataxia, a progressive neurodegenerative disorder characterized by lower-limb spasticity and generalized ataxia with dysarthria, impaired ocular movements, and gait disturbance. {ECO:0000269 PubMed:22958904}. Note=The disease is caused by mutations affecting the gene represented in this entry. A mutation affecting a critical donor site for the splicing of VAMP1 isoforms leads to the loss of neuron-specific isoform 1 and subsequently results in haploinsufficiency (PubMed:22958904). Therefore, there would be less neurotransmitter exocytosis in specific regions of the brain, causing the symptoms of SPAX1. {ECO:0000303 PubMed:22958904}.

Relevant External Links for VAMP1

Genetic Association Database (GAD)
VAMP1
Human Genome Epidemiology (HuGE) Navigator
VAMP1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VAMP1
genes like me logo Genes that share disorders with VAMP1: view

No data available for Genatlas for VAMP1 Gene

Publications for VAMP1 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 60
  2. A splice-isoform of vesicle-associated membrane protein-1 (VAMP-1) contains a mitochondrial targeting signal. (PMID: 9658161) Isenmann S … Wattenberg BW (Molecular biology of the cell 1998) 3 4 22 60
  3. VAMP1 mutation causes dominant hereditary spastic ataxia in Newfoundland families. (PMID: 22958904) Bourassa CV … Rouleau GA (American journal of human genetics 2012) 3 4 60
  4. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson SL … O'Brien SJ (PloS one 2010) 3 45 60
  5. Genome-wide association with bone mass and geometry in the Framingham Heart Study. (PMID: 17903296) Kiel DP … Karasik D (BMC medical genetics 2007) 3 45 60

Products for VAMP1 Gene

Sources for VAMP1 Gene

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