Mouse Gene Vamp1 (ENSMUST00000032487.13) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
Description: Mus musculus vesicle-associated membrane protein 1 (Vamp1), transcript variant 1, mRNA. (from RefSeq NM_009496)
Gencode Transcript: ENSMUST00000032487.13
Gencode Gene: ENSMUSG00000030337.16
Transcript (Including UTRs)
Position: mm10 chr6:125,215,551-125,222,306 Size: 6,756 Total Exon Count: 5 Strand: +
Coding Region
Position: mm10 chr6:125,215,726-125,220,066 Size: 4,341 Coding Exon Count: 5
Data last updated at UCSC: 2019-09-19
Sequence and Links to Tools and Databases
Comments and Description Text from UniProtKB
ID: VAMP1_MOUSE
DESCRIPTION: RecName: Full=Vesicle-associated membrane protein 1; Short=VAMP-1; AltName: Full=Synaptobrevin-1;
FUNCTION: Involved in the targeting and/or fusion of transport vesicles to their target membrane.SUBUNIT: Interacts with VAPA and VAPB (By similarity).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).SIMILARITY: Belongs to the synaptobrevin family.SIMILARITY: Contains 1 v-SNARE coiled-coil homology domain.
Primer design for this transcript
Comparative Toxicogenomics Database (CTD)
The following chemicals interact with this gene
C111118
2',3,3',4',5-pentachloro-4-hydroxybiphenyl
D015085
2,4,5-Trichlorophenoxyacetic Acid
C036990
2-amino-3,8-dimethylimidazo(4,5-f)quinoxaline
D015123
7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
D000082
Acetaminophen
D000452
Aldrin
D000643
Ammonium Chloride
D001241
Aspirin
D002794
Choline
D003024
Clozapine
more ... click here to view the complete list
mRNA Secondary Structure of 3' and 5' UTRs
The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.
Protein Domain and Structure Information
InterPro Domains: Graphical view of domain structure IPR001388 - Synaptobrevin
IPR016444 - Synaptobrevin_met/fun
Pfam Domains: PF00957 - Synaptobrevin
SCOP Domains: 58038 - SNARE fusion complex
57997 - Tropomyosin
ModBase Predicted Comparative 3D Structure on Q62442
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.
Orthologous Genes in Other Species
Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
Gene Ontology (GO) Annotations with Structured Vocabulary
Descriptions from all associated GenBank mRNAs
AK018783 - Mus musculus adult male cerebellum cDNA, RIKEN full-length enriched library, clone:1500035D08 product:vesicle-associated membrane protein 1, full insert sequence.AK037711 - Mus musculus 16 days neonate thymus cDNA, RIKEN full-length enriched library, clone:A130039J07 product:vesicle-associated membrane protein 1, full insert sequence.AK078156 - Mus musculus adult male medulla oblongata cDNA, RIKEN full-length enriched library, clone:6330583M24 product:vesicle-associated membrane protein 1, full insert sequence.AK013893 - Mus musculus 12 days embryo head cDNA, RIKEN full-length enriched library, clone:3010005E14 product:vesicle-associated membrane protein 1, full insert sequence.BC057587 - Mus musculus vesicle-associated membrane protein 1, mRNA (cDNA clone MGC:67110 IMAGE:6415847), complete cds.BC049902 - Mus musculus vesicle-associated membrane protein 1, mRNA (cDNA clone MGC:54750 IMAGE:4500872), complete cds.U61751 - Mus musculus vesicle-associated membrane protein VAMP-1 mRNA, complete cds.AF007167 - Mus musculus vesicle associated membrane protein 1 (mVAMP-1) mRNA, complete cds.X83886 - M.musculus thymus-specific mRNA (275 bp).
Biochemical and Signaling Pathways
KEGG - Kyoto Encyclopedia of Genes and Genomes mmu04130 - SNARE interactions in vesicular transport
Other Names for This Gene
Alternate Gene Symbols: NM_009496, Q62442, Q6PFF3, Q810K6, Syb1, uc009dtx.1, uc009dtx.2, VAMP1_MOUSEUCSC ID: uc009dtx.2RefSeq Accession: NM_009496
Protein: Q62442
(aka VAMP1_MOUSE)
CCDS: CCDS20546.1 , CCDS39637.1
Gene Model Information
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Methods, Credits, and Use Restrictions
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for details on how this gene model was made and data restrictions if any.