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VAPA VAMP associated protein A [ Homo sapiens (human) ]

Gene ID: 9218, updated on 7-Aug-2022

Summary

Official Symbol
VAPAprovided by HGNC
Official Full Name
VAMP associated protein Aprovided by HGNC
Primary source
HGNC:HGNC:12648
See related
Ensembl:ENSG00000101558 MIM:605703; AllianceGenome:HGNC:12648
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
VAP-A; VAP33; VAMP-A; VAP-33; hVAP-33
Summary
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]
Expression
Ubiquitous expression in adrenal (RPKM 26.8), brain (RPKM 22.1) and 25 other tissues See more
Orthologs
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Genomic context

See VAPA in Genome Data Viewer
Location:
18p11.22
Exon count:
12
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (9914016..9960021)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (10077467..10123397)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (9914013..9960018)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371982 Neighboring gene Sharpr-MPRA regulatory region 4522 Neighboring gene uncharacterized LOC124904245 Neighboring gene RNA, 5S ribosomal pseudogene 450 Neighboring gene uncharacterized LOC124904246 Neighboring gene uncharacterized LOC105371983

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Genome-wide joint meta-analysis of SNP and SNP-by-smoking interaction identifies novel loci for pulmonary function.
EBI GWAS Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope transmembrane glycoprotein gp41 env HIV-1 gp41 is identified to have a physical interaction with VAMP (vesicle-associated membrane protein)-associated protein A (VAPA) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC3745

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables FFAT motif binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables FFAT motif binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables cadherin binding HDA PubMed 
enables microtubule binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein domain specific binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein heterodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in COPII-coated vesicle budding IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cell death IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in ceramide transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
NOT involved_in endoplasmic reticulum organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in membrane fusion TAS
Traceable Author Statement
more info
PubMed 
involved_in negative regulation by host of viral genome replication IDA
Inferred from Direct Assay
more info
PubMed 
involved_in neuron projection development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in neuron projection development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in phospholipid transport IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation by host of viral genome replication IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of I-kappaB kinase/NF-kappaB signaling HMP PubMed 
NOT involved_in protein folding in endoplasmic reticulum IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in protein localization to endoplasmic reticulum IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in sphingomyelin biosynthetic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in sterol transport IDA
Inferred from Direct Assay
more info
PubMed 
involved_in viral release from host cell IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
located_in Golgi membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in azurophil granule membrane TAS
Traceable Author Statement
more info
 
colocalizes_with bicellular tight junction IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in endoplasmic reticulum HDA PubMed 
located_in endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
NOT located_in endoplasmic reticulum exit site IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in endoplasmic reticulum membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
located_in microtubule cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
located_in nuclear membrane IEA
Inferred from Electronic Annotation
more info
 
colocalizes_with perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in vesicle IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
vesicle-associated membrane protein-associated protein A
Names
33 kDa VAMP-associated protein
VAMP (vesicle-associated membrane protein)-associated protein A, 33kDa
epididymis secretory sperm binding protein

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_003574.6NP_003565.4  vesicle-associated membrane protein-associated protein A isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC006238, AF154847, BG488667, BP209270
    Consensus CDS
    CCDS11847.2
    UniProtKB/Swiss-Prot
    Q9P0L0
    Related
    ENSP00000345656.4, ENST00000340541.4
    Conserved Domains (1) summary
    pfam00635
    Location:14118
    Motile_Sperm; MSP (Major sperm protein) domain
  2. NM_194434.3NP_919415.2  vesicle-associated membrane protein-associated protein A isoform 2

    See identical proteins and their annotated locations for NP_919415.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1, resulting in a shorter protein (isoform 2), compared to isoform 1.
    Source sequence(s)
    AC006238, BC002992, BP209270
    Consensus CDS
    CCDS11848.2
    UniProtKB/Swiss-Prot
    Q9P0L0, Q9UBZ2
    Related
    ENSP00000382880.3, ENST00000400000.7
    Conserved Domains (1) summary
    pfam00635
    Location:14118
    Motile_Sperm; MSP (Major sperm protein) domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000018.10 Reference GRCh38.p14 Primary Assembly

    Range
    9914016..9960021
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047437929.1XP_047293885.1  vesicle-associated membrane protein-associated protein A isoform X1

  2. XM_047437932.1XP_047293888.1  vesicle-associated membrane protein-associated protein A isoform X2

  3. XM_047437930.1XP_047293886.1  vesicle-associated membrane protein-associated protein A isoform X1

  4. XM_017026079.2XP_016881568.1  vesicle-associated membrane protein-associated protein A isoform X2

  5. XM_047437928.1XP_047293884.1  vesicle-associated membrane protein-associated protein A isoform X1

  6. XM_047437931.1XP_047293887.1  vesicle-associated membrane protein-associated protein A isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060942.1 Alternate T2T-CHM13v2.0

    Range
    10077467..10123397
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)