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    Vapa vesicle-associated membrane protein, associated protein A [ Mus musculus (house mouse) ]

    Gene ID: 30960, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Vapaprovided by MGI
    Official Full Name
    vesicle-associated membrane protein, associated protein Aprovided by MGI
    Primary source
    MGI:MGI:1353561
    See related
    Ensembl:ENSMUSG00000024091 AllianceGenome:MGI:1353561
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    33kDa; VAP-A; VAP33; VAMP-A; VAP-33
    Summary
    Predicted to enable several functions, including FFAT motif binding activity; identical protein binding activity; and protein heterodimerization activity. Predicted to be involved in several processes, including COPII-coated vesicle budding; modulation by host of viral genome replication; and protein localization to endoplasmic reticulum. Located in endoplasmic reticulum and microtubule cytoskeleton. Orthologous to human VAPA (VAMP associated protein A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in duodenum adult (RPKM 108.3), adrenal adult (RPKM 93.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    17 E1.1; 17 34.9 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (65887048..65925441, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (65580053..65616462, complement)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 35400 Neighboring gene protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin) pseudogene Neighboring gene thioredoxin domain containing 2 (spermatozoa) Neighboring gene predicted gene, 35477 Neighboring gene STARR-seq mESC enhancer starr_43016 Neighboring gene RAB31, member RAS oncogene family Neighboring gene STARR-seq mESC enhancer starr_43017 Neighboring gene STARR-seq mESC enhancer starr_43022

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. [Expression and function of VAP-33 in murine dendritic cell sarcoma]. Yang ZL, et al. Zhonghua Bing Li Xue Za Zhi, 2009 Aug. PMID 20021965
    2. Interaction between the motor protein prestin and the transporter protein VAPA. Sengupta S, et al. Biochim Biophys Acta, 2010 Jul. PMID 20359505, Free PMC Article
    3. Mouse VAP33 is associated with the endoplasmic reticulum and microtubules. Skehel PA, et al. Proc Natl Acad Sci U S A, 2000 Feb 1. PMID 10655491, Free PMC Article
    4. VAMP-associated protein-A regulates partitioning of oxysterol-binding protein-related protein-9 between the endoplasmic reticulum and Golgi apparatus. Wyles JP, et al. Exp Cell Res, 2004 Jul 15. PMID 15212954
    5. Neuronal ER-plasma membrane junctions organized by Kv2-VAP pairing recruit Nir proteins and affect phosphoinositide homeostasis. Kirmiz M, et al. J Biol Chem, 2019 Nov 22. PMID 31594866, Free PMC Article

    See all (48) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CALCOCO1 acts with VAMP-associated proteins to mediate ER-phagy.
      Title: CALCOCO1 acts with VAMP-associated proteins to mediate ER-phagy.
    2. ORP/Osh mediate cross-talk between ER-plasma membrane contact site components and plasma membrane SNAREs.
      Title: ORP/Osh mediate cross-talk between ER-plasma membrane contact site components and plasma membrane SNAREs.
    3. the VAP-interacting membrane-associated phosphatidylinositol (PtdIns) transfer proteins PYK2 N-terminal domain-interacting receptor 2 (Nir2) and Nir3 specifically associate with Kv2.1 complexes.
      Title: Neuronal ER-plasma membrane junctions organized by Kv2-VAP pairing recruit Nir proteins and affect phosphoinositide homeostasis.
    4. There was colocalization of Kv2.1 and Kv2.2 with endogenous VAPA at ER-PM junctions in mouse brain neurons. Expression of Kv2.1 recruits VAPA to ER-PM junctions. Knocking out VAPA expression disrupts Kv2.1 clustering.The domains of VAPs and Kv2.1 necessary and sufficient for their association at ER-PM junctions were identified.
      Title: Identification of VAPA and VAPB as Kv2 Channel-Interacting Proteins Defining Endoplasmic Reticulum-Plasma Membrane Junctions in Mammalian Brain Neurons.
    5. VAP-33 expression in dendritic cell sarcoma was related to vesicle transportation during antigen processing in dendritic cells.
      Title: [Expression and function of VAP-33 in murine dendritic cell sarcoma].
    6. These data suggest that VAPA could be involved in prestin's transportation inside outer hair cells (OHCs) and may facilitate the targeting of this abundant OHC protein to the plasma membrane.
      Title: Interaction between the motor protein prestin and the transporter protein VAPA.
    7. Vapa regulates partitioning of Osbp between the endoplasmic retiuculum and the Golgi apparatus.
      Title: VAMP-associated protein-A regulates partitioning of oxysterol-binding protein-related protein-9 between the endoplasmic reticulum and Golgi apparatus.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables FFAT motif binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables FFAT motif binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables microtubule binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein heterodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in COPII-coated vesicle budding ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ceramide transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cholesterol transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endoplasmic reticulum-plasma membrane tethering ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation by host of viral genome replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in neuron projection development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in neuron projection development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in phospholipid transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation by host of viral genome replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in sphingomyelin biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in sterol transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in viral release from host cell ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in anchoring junction IEA
    Inferred from Electronic Annotation
    more info
    		  
    colocalizes_with bicellular tight junction ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in microtubule cytoskeleton IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    colocalizes_with perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    vesicle-associated membrane protein-associated protein A
    Names
    33 kDa VAMP-associated protein
    VAMP-associated protein A
    synaptobrevin-associated protein of 33kDa

    NCBI Reference Sequences (RefSeq)

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    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_001355402.1 → NP_001342331.1  vesicle-associated membrane protein-associated protein A isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC166058, CT030729
      UniProtKB/TrEMBL
      A0A3B2W837
      Related
      ENSMUSP00000156845.2, ENSMUST00000232686.2
      Conserved Domains (1) summary
      pfam00635
      Location:14 → 118
      Motile_Sperm; MSP (Major sperm protein) domain

    2. NM_013933.3 → NP_038961.2  vesicle-associated membrane protein-associated protein A isoform 2

      See identical proteins and their annotated locations for NP_038961.2

      Status: VALIDATED

      Source sequence(s)
      AK167381, BM899396
      Consensus CDS
      CCDS37677.1
      UniProtKB/Swiss-Prot
      Q3TJM1, Q9QY77, Q9WV55
      Related
      ENSMUSP00000024897.9, ENSMUST00000024897.10
      Conserved Domains (1) summary
      pfam00635
      Location:14 → 118
      Motile_Sperm; MSP (Major sperm protein) domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000083.7 Reference GRCm39 C57BL/6J

      Range
      65887048..65925441 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036160637.1 → XP_036016530.1  vesicle-associated membrane protein-associated protein A isoform X2

      Conserved Domains (1) summary
      pfam00635
      Location:14 → 118
      Motile_Sperm; MSP (Major sperm protein) domain

    2. XM_017317500.3 → XP_017172989.1  vesicle-associated membrane protein-associated protein A isoform X1

      UniProtKB/TrEMBL
      A0A3B2W837
      Conserved Domains (1) summary
      pfam00635
      Location:14 → 118
      Motile_Sperm; MSP (Major sperm protein) domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9WV55.2 GenPept UniProtKB/Swiss-Prot:Q9WV55

    Gene LinkOut

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