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Aliases for VAPA Gene

Aliases for VAPA Gene

  • VAMP (Vesicle-Associated Membrane Protein)-Associated Protein A, 33kDa 2 3
  • 33 KDa VAMP-Associated Protein 3 4
  • VAMP-Associated Protein A 3 4
  • VAMP-A 3 4
  • VAP-33 3 4
  • VAP-A 3 4
  • VAP33 3 4
  • VAMP (Vesicle-Associated Membrane Protein)-Associated Protein A (33kD) 2
  • HVAP-33 3

External Ids for VAPA Gene

Previous GeneCards Identifiers for VAPA Gene

  • GC18P010047
  • GC18P009903

Summaries for VAPA Gene

Entrez Gene Summary for VAPA Gene

  • The protein encoded by this gene is a type IV membrane protein. It is present in the plasma membrane and intracellular vesicles. It may also be associated with the cytoskeleton. This protein may function in vesicle trafficking, membrane fusion, protein complex assembly and cell motility. Alternative splicing occurs at this locus and two transcript variants encoding distinct isoforms have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for VAPA Gene

VAPA (VAMP (Vesicle-Associated Membrane Protein)-Associated Protein A, 33kDa) is a Protein Coding gene. Diseases associated with VAPA include chief cell adenoma and botulism. Among its related pathways are Metabolism and Sphingolipid metabolism. GO annotations related to this gene include protein heterodimerization activity and structural molecule activity. An important paralog of this gene is VAPB.

UniProtKB/Swiss-Prot for VAPA Gene

  • May play a role in vesicle trafficking.

Gene Wiki entry for VAPA Gene

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

Genomics for VAPA Gene

Regulatory Elements for VAPA Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for VAPA Gene

9,913,958 bp from pter
9,960,021 bp from pter
46,064 bases
Plus strand

Genomic View for VAPA Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for VAPA Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VAPA Gene

Proteins for VAPA Gene

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

    Protein Symbol:
    Recommended name:
    Vesicle-associated membrane protein-associated protein A
    Protein Accession:
    Secondary Accessions:
    • A6NDZ0
    • D3DUI3
    • O75453
    • Q5U0E7
    • Q9UBZ2

    Protein attributes for VAPA Gene

    249 amino acids
    Molecular mass:
    27893 Da
    Quaternary structure:
    • Homodimer, and heterodimer with VAPB. Interacts with VAMP1, VAMP2, STX1A, BET1, SEC22C and with the C-terminal domain of OCLN. Interacts with OSBPL1A. Interacts (via MSP domain) with ZFYVE27; may retain ZFYVE27 in the endoplasmic reticulum and regulate its function in cell projections formation. Interacts with OSBP. Interacts (via C-terminus) with RSAD2/viperin (via C-terminus). Interacts with HCV protein NS5A and NS5B. Interacts with IFITM3.
    • Sequence=AAD09742.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAF72105.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BG488667; Type=Frameshift; Positions=72, 207, 241; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for VAPA Gene

    Alternative splice isoforms for VAPA Gene


neXtProt entry for VAPA Gene

Proteomics data for VAPA Gene at MOPED

Post-translational modifications for VAPA Gene

  • Ubiquitination at Lys 10, Lys 146, and Lys 154
  • Modification sites at PhosphoSitePlus

Other Protein References for VAPA Gene

Antibody Products

No data available for DME Specific Peptides for VAPA Gene

Domains & Families for VAPA Gene

Protein Domains for VAPA Gene

Suggested Antigen Peptide Sequences for VAPA Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 MSP domain.
  • Belongs to the VAMP-associated protein (VAP) (TC 9.B.17) family.
  • Contains 1 MSP domain.
  • Belongs to the VAMP-associated protein (VAP) (TC 9.B.17) family.
genes like me logo Genes that share domains with VAPA: view

No data available for Gene Families for VAPA Gene

Function for VAPA Gene

Molecular function for VAPA Gene

UniProtKB/Swiss-Prot Function:
May play a role in vesicle trafficking.

Gene Ontology (GO) - Molecular Function for VAPA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004871 signal transducer activity IMP 12761501
GO:0005515 protein binding IPI 10544080
GO:0008017 microtubule binding IMP 18713837
GO:0019904 protein domain specific binding IPI 20178991
GO:0033149 FFAT motif binding IMP 18713837
genes like me logo Genes that share ontologies with VAPA: view

Phenotypes for VAPA Gene

GenomeRNAi human phenotypes for VAPA:
genes like me logo Genes that share phenotypes with VAPA: view

Animal Model Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for VAPA

In Situ Assay Products

Flow Cytometry Products

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

Localization for VAPA Gene

Subcellular locations from UniProtKB/Swiss-Prot for VAPA Gene

Endoplasmic reticulum membrane; Single-pass type IV membrane protein. Note=Present in the plasma membrane and in intracellular vesicles, together with SNARE proteins. May also associate with the cytoskeleton. Colocalizes with OCLN at the tight junction in polarized epithelial cells.

Subcellular locations from

Jensen Localization Image for VAPA Gene COMPARTMENTS Subcellular localization image for VAPA gene
Compartment Confidence
endoplasmic reticulum 5
plasma membrane 5
golgi apparatus 3
cytoskeleton 2
cytosol 1
endosome 1
lysosome 1
vacuole 1

Gene Ontology (GO) - Cellular Components for VAPA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IMP 18713837
GO:0005783 endoplasmic reticulum IDA 16791210
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0005886 plasma membrane IDA 10523508
GO:0005923 colocalizes_with bicellular tight junction IDA 10523508
genes like me logo Genes that share ontologies with VAPA: view

Pathways & Interactions for VAPA Gene

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

Pathways by source for VAPA Gene

1 Qiagen pathway for VAPA Gene
1 BioSystems pathway for VAPA Gene

PCR Array Products

Gene Ontology (GO) - Biological Process for VAPA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006665 sphingolipid metabolic process TAS --
GO:0006888 ER to Golgi vesicle-mediated transport IMP 18713837
GO:0007029 NOT endoplasmic reticulum organization IMP 18713837
GO:0007165 signal transduction IMP 12761501
GO:0008219 cell death IMP 19289470
genes like me logo Genes that share ontologies with VAPA: view

No data available for SIGNOR curated interactions for VAPA Gene

Drugs & Compounds for VAPA Gene

(1) Drugs for VAPA Gene - From: NovoSeek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
cholesterol Experimental Pharma Agonist 0

(1) Additional Compounds for VAPA Gene - From: NovoSeek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with VAPA: view

Transcripts for VAPA Gene

Unigene Clusters for VAPA Gene

VAMP (vesicle-associated membrane protein)-associated protein A, 33kDa:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for VAPA

Flow Cytometry Products

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

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4a · 4b · 4c ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c · 9d
SP1: - - - - - -
SP2: - - - - -
SP3: - - - - -
SP4: - - -
SP5: - - -
SP6: - - - -
SP8: - - -

Relevant External Links for VAPA Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for VAPA Gene

mRNA expression in normal human tissues for VAPA Gene

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

SOURCE GeneReport for Unigene cluster for VAPA Gene Hs.165195

mRNA Expression by UniProt/SwissProt for VAPA Gene

Tissue specificity: Ubiquitous
genes like me logo Genes that share expression patterns with VAPA: view

Protein tissue co-expression partners for VAPA Gene

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Protein differential expression in normal tissues for VAPA Gene

Orthologs for VAPA Gene

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

Orthologs for VAPA Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia VAPA 35
  • 88.49 (n)
  • 95.18 (a)
  • 95 (a)
(Canis familiaris)
Mammalia VAPA 35
  • 94.51 (n)
  • 98.39 (a)
  • 91 (a)
(Mus musculus)
Mammalia Vapa 35
  • 93.71 (n)
  • 97.19 (a)
Vapa 16
Vapa 36
  • 97 (a)
(Pan troglodytes)
Mammalia VAPA 35
  • 99.77 (n)
  • 100 (a)
  • 100 (a)
(Rattus norvegicus)
Mammalia Vapa 35
  • 91.83 (n)
  • 96.79 (a)
(Monodelphis domestica)
Mammalia -- 36
  • 80 (a)
-- 36
  • 76 (a)
(Ornithorhynchus anatinus)
Mammalia VAPA 36
  • 90 (a)
(Gallus gallus)
Aves VAPA 35
  • 87.59 (n)
  • 94.89 (a)
  • 88 (a)
(Anolis carolinensis)
Reptilia VAPA 36
  • 80 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6111 35
vapa 35
  • 71.66 (n)
  • 74.89 (a)
(Danio rerio)
Actinopterygii vapal 35
  • 65.29 (n)
  • 73.55 (a)
vapa 36
  • 85 (a)
vapal 36
  • 72 (a)
fruit fly
(Drosophila melanogaster)
Insecta Vap-33-1 37
  • 53 (a)
fan 36
  • 28 (a)
Vap-33-1 36
  • 35 (a)
(Caenorhabditis elegans)
Secernentea vpr-1 36
  • 32 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SCS2 36
  • 24 (a)
SCS22 36
  • 26 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4513 35
Species with no ortholog for VAPA:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • 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 VAPA Gene

Gene Tree for VAPA (if available)
Gene Tree for VAPA (if available)

Paralogs for VAPA Gene

Paralogs for VAPA Gene

(1) SIMAP similar genes for VAPA Gene using alignment to 2 proteins: Pseudogenes for VAPA Gene

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

Variants for VAPA Gene

Sequence variations from dbSNP and Humsavar for VAPA Gene

SNP ID Clin Chr 18 pos Sequence Context AA Info Type MAF
rs3069 -- 9,959,496(+) AACCT(A/G)CAAGA utr-variant-3-prime
rs3070 -- 9,958,525(-) CAATT(A/T)TCTTT utr-variant-3-prime
rs28212 -- 9,959,885(-) TTTTG(A/G)ATTAA utr-variant-3-prime
rs28804 -- 9,950,747(-) CAGCA(A/G)TGAGA intron-variant
rs29066 -- 9,959,638(+) TGTTA(C/T)GTACT utr-variant-3-prime

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

Variant ID Type Subtype PubMed ID
nsv833586 CNV Loss 17160897
nsv527829 CNV Gain 19592680
esv24761 CNV Loss 19812545
esv2716779 CNV Deletion 23290073
esv2012315 CNV Deletion 18987734
esv5283 CNV Deletion 18987735
nsv131733 CNV Loss 16902084
esv1000474 CNV Deletion 20482838
esv1026283 CNV Deletion 17803354
nsv131589 CNV Loss 16902084
nsv526637 CNV Loss 19592680

Variation tolerance for VAPA Gene

Residual Variation Intolerance Score: 35.57% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.98; 20.22% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VAPA Gene

HapMap Linkage Disequilibrium report

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

Disorders for VAPA Gene

MalaCards: The human disease database

(6) MalaCards diseases for VAPA Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
chief cell adenoma
  • chief cell adenoma of parathyroid gland
  • foodborne botulism
amyotrophic lateral sclerosis type 14
  • without frontotemporal dementia
edwards syndrome
  • e3 trisomy
infant botulism
  • infant intestinal botulism
- elite association
Search VAPA in MalaCards View complete list of genes associated with diseases

Relevant External Links for VAPA

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

No data available for UniProtKB/Swiss-Prot and Genatlas for VAPA Gene

Publications for VAPA Gene

  1. Molecular cloning and characterization of mammalian homologues of vesicle-associated membrane protein-associated (VAMP-associated) proteins. (PMID: 9920726) Nishimura Y. … Tanaka T. (Biochem. Biophys. Res. Commun. 1999) 2 23 67
  2. Identification of a human homologue of the vesicle-associated membrane protein (VAMP)-associated protein of 33 kDa (VAP-33): a broadly expressed protein that binds to VAMP. (PMID: 9657962) Weir M.L. … Trimble W.S. (Biochem. J. 1998) 2 23 67
  3. Electrostatic interaction between oxysterol-binding protein and VAMP- associated protein A revealed by NMR and mutagenesis studies. (PMID: 20178991) Furuita K. … Kojima C. (J. Biol. Chem. 2010) 23 67
  4. Promotion of neurite extension by protrudin requires its interaction with vesicle-associated membrane protein-associated protein. (PMID: 19289470) Saita S. … Nakayama K.I. (J. Biol. Chem. 2009) 23 67
  5. The glycolipid transfer protein interacts with the vesicle-associated membrane protein-associated protein VAP-A. (PMID: 19665998) Tuuf J. … Mattjus P. (Biochem. Biophys. Res. Commun. 2009) 23 67

Products for VAPA Gene

Sources for VAPA Gene

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