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VMP1 vacuole membrane protein 1 [ Homo sapiens (human) ]

Gene ID: 81671, updated on 3-May-2020

Summary

Official Symbol
VMP1provided by HGNC
Official Full Name
vacuole membrane protein 1provided by HGNC
Primary source
HGNC:HGNC:29559
See related
Ensembl:ENSG00000062716 MIM:611753
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
EPG3; TANGO5; TMEM49
Summary
This gene encodes a transmembrane protein that plays a key regulatory role in the process of autophagy. The ectopic overexpression of the encoded protein in cultured cells triggers autophagy even under nutrient-rich conditions. This gene is overexpressed in pancreatitis affected acinar cells where the encoded protein mediates sequestration and degradation of potentially deleterious activated zymogen granules in a process termed, zymophagy. [provided by RefSeq, Jul 2016]
Expression
Ubiquitous expression in gall bladder (RPKM 60.7), appendix (RPKM 49.2) and 25 other tissues See more
Orthologs

Genomic context

See VMP1 in Genome Data Viewer
Location:
17q23.1
Exon count:
13
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (59707654..59842255)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (57784553..57919610)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 22 Neighboring gene clathrin heavy chain Neighboring gene peptidyl-tRNA hydrolase 2 Neighboring gene VMP1 intron CAGE-defined low expression enhancer Neighboring gene VISTA enhancer hs1656 Neighboring gene RNA, U6 small nuclear 450, pseudogene Neighboring gene microRNA 21 Neighboring gene tubulin delta 1 Neighboring gene NADH:ubiquinone oxidoreductase subunit B8 pseudogene 2

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

NHGRI GWAS Catalog

Description
Genome-wide association study evaluating lipoprotein-associated phospholipase A2 mass and activity at baseline and after rosuvastatin therapy.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of vacuole membrane protein 1 (VMP1) by siRNA inhibits HIV-1 replication in CD4+/CCR5+/CXCR4+ TZM-bl HeLa cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp566I133

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
Golgi organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
autophagosome assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
autophagy IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell junction assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell-cell adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
embryo implantation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
autophagosome membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
endomembrane system IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum-Golgi intermediate compartment membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleolus IDA
Inferred from Direct Assay
more info
 
phagophore assembly site IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
vacuole membrane protein 1
Names
ectopic P-granules autophagy protein 3 homolog
transmembrane protein 49
transport and golgi organization 5 homolog

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_051107.1 RefSeqGene

    Range
    5190..139791
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001329394.2NP_001316323.1  vacuole membrane protein 1 isoform 1

    Status: REVIEWED

    Source sequence(s)
    AC004686, AC025858, AC040904, AC091271
    Consensus CDS
    CCDS11619.1
    UniProtKB/Swiss-Prot
    Q96GC9
    Conserved Domains (1) summary
    cl00429
    Location:247298
    SNARE_assoc; SNARE associated Golgi protein
  2. NM_001329395.2NP_001316324.1  vacuole membrane protein 1 isoform 2

    Status: REVIEWED

    Source sequence(s)
    AC004686, AC025858, AC040904, AC091271
    UniProtKB/TrEMBL
    D3DU01
    Conserved Domains (1) summary
    cl00429
    Location:247298
    SNARE_assoc; SNARE associated Golgi protein
  3. NM_001329396.2NP_001316325.1  vacuole membrane protein 1 isoform 3

    Status: REVIEWED

    Source sequence(s)
    AC004686, AC025858, AC040904, AC091271
  4. NM_001329397.2NP_001316326.1  vacuole membrane protein 1 isoform 4

    Status: REVIEWED

    Source sequence(s)
    AK024969, AK293664, BC009758, BM803108, BQ002999, CA412810, CB216599, DC428792
    UniProtKB/Swiss-Prot
    Q96GC9
    UniProtKB/TrEMBL
    B4DEJ9
  5. NM_001329398.2NP_001316327.1  vacuole membrane protein 1 isoform 5

    Status: REVIEWED

    Source sequence(s)
    AC004686, AC025858, AC040904, AC091271
  6. NM_001329399.2NP_001316328.1  vacuole membrane protein 1 isoform 6

    Status: REVIEWED

    Source sequence(s)
    AK024969, AK294854, BM803108, BQ002999, CA412810, CB216599, DC428792
    UniProtKB/TrEMBL
    B4DGZ7
    Conserved Domains (1) summary
    cl00429
    Location:150201
    SNARE_assoc; SNARE associated Golgi protein
  7. NM_001329400.2NP_001316329.1  vacuole membrane protein 1 isoform 7

    Status: REVIEWED

    Source sequence(s)
    AK024969, AK293578, BM803108, BQ002999, CA412810, CB216599
    UniProtKB/TrEMBL
    B4DED7
    Conserved Domains (1) summary
    cl00429
    Location:113164
    SNARE_assoc; SNARE associated Golgi protein
  8. NM_001329401.2NP_001316330.1  vacuole membrane protein 1 isoform 8

    Status: REVIEWED

    Source sequence(s)
    AC004686, AC025858, AC040904, AC091271
  9. NM_001329402.2NP_001316331.1  vacuole membrane protein 1 isoform 9

    Status: REVIEWED

    Source sequence(s)
    AK024969, AK301254, BM803108, BQ002999, CA412810, CB216599
    UniProtKB/Swiss-Prot
    Q96GC9
    Related
    ENSP00000467350.1, ENST00000591877.1
    Conserved Domains (1) summary
    cl00429
    Location:55106
    SNARE_assoc; SNARE associated Golgi protein
  10. NM_030938.5NP_112200.2  vacuole membrane protein 1 isoform 1

    See identical proteins and their annotated locations for NP_112200.2

    Status: REVIEWED

    Source sequence(s)
    AK024969, BC009758, BM803108, BQ002999, CA412810, CB216599
    Consensus CDS
    CCDS11619.1
    UniProtKB/Swiss-Prot
    Q96GC9
    Related
    ENSP00000262291.3, ENST00000262291.9
    Conserved Domains (1) summary
    cl00429
    Location:247298
    SNARE_assoc; SNARE associated Golgi protein

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p13 Primary Assembly

    Range
    59707654..59842255
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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