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Aliases for VMP1 Gene

Aliases for VMP1 Gene

  • Vacuole Membrane Protein 1 2 3 5
  • Transmembrane Protein 49 2 3 4
  • TMEM49 3 4
  • Ectopic P-Granules Autophagy Protein 3 Homolog (C. Elegans) 2
  • Transport And Golgi Organization 5 Homolog (Drosophila) 2
  • Ectopic P-Granules Autophagy Protein 3 Homolog 3
  • Transport And Golgi Organization 5 Homolog 3
  • TANGO5 3
  • EPG3 3
  • TDC1 4

External Ids for VMP1 Gene

Previous HGNC Symbols for VMP1 Gene

  • TMEM49

Previous GeneCards Identifiers for VMP1 Gene

  • GC17P057536
  • GC17P060234
  • GC17P058126
  • GC17P058259
  • GC17P055139
  • GC17P057785

Summaries for VMP1 Gene

GeneCards Summary for VMP1 Gene

VMP1 (Vacuole Membrane Protein 1) is a Protein Coding gene. Diseases associated with VMP1 include acute pancreatitis. Among its related pathways are p53 Pathway (RnD) and Regulation of autophagy.

UniProtKB/Swiss-Prot for VMP1 Gene

  • Stress-induced protein that, when overexpressed, promotes formation of intracellular vacuoles followed by cell death. May be involved in the cytoplasmic vacuolization of acinar cells during the early stage of acute pancreatitis. Plays a role in the initial stages of the autophagic process through its interaction with BECN1 (By similarity). Involved in cell-cell adhesion. Plays an essential role in formation of cell junctions.

Gene Wiki entry for VMP1 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VMP1 Gene

Genomics for VMP1 Gene

Regulatory Elements for VMP1 Gene

Promoters for VMP1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around VMP1 on UCSC Golden Path with GeneCards custom track

Genomic Location for VMP1 Gene

Chromosome:
17
Start:
59,707,192 bp from pter
End:
59,842,255 bp from pter
Size:
135,064 bases
Orientation:
Plus strand

Genomic View for VMP1 Gene

Genes around VMP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VMP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VMP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VMP1 Gene

Proteins for VMP1 Gene

  • Protein details for VMP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96GC9-VMP1_HUMAN
    Recommended name:
    Vacuole membrane protein 1
    Protein Accession:
    Q96GC9
    Secondary Accessions:
    • B4DVV9
    • Q9H0P4
    • Q9P089

    Protein attributes for VMP1 Gene

    Size:
    406 amino acids
    Molecular mass:
    46238 Da
    Quaternary structure:
    • Interacts with BECN1. Interacts with TJP1. Interacts with TP53INP2.

    Alternative splice isoforms for VMP1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VMP1 Gene

Proteomics data for VMP1 Gene at MOPED

Post-translational modifications for VMP1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for VMP1 (VMP1)
  • Santa Cruz Biotechnology (SCBT) Antibodies for VMP1

No data available for DME Specific Peptides for VMP1 Gene

Domains & Families for VMP1 Gene

Protein Domains for VMP1 Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q96GC9

UniProtKB/Swiss-Prot:

VMP1_HUMAN :
  • Belongs to the VMP1 family.
Family:
  • Belongs to the VMP1 family.
genes like me logo Genes that share domains with VMP1: view

No data available for Gene Families for VMP1 Gene

Function for VMP1 Gene

Molecular function for VMP1 Gene

UniProtKB/Swiss-Prot Function:
Stress-induced protein that, when overexpressed, promotes formation of intracellular vacuoles followed by cell death. May be involved in the cytoplasmic vacuolization of acinar cells during the early stage of acute pancreatitis. Plays a role in the initial stages of the autophagic process through its interaction with BECN1 (By similarity). Involved in cell-cell adhesion. Plays an essential role in formation of cell junctions.
genes like me logo Genes that share phenotypes with VMP1: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for VMP1 Gene

Localization for VMP1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for VMP1 Gene

Endoplasmic reticulum-Golgi intermediate compartment membrane; Multi-pass membrane protein. Cell membrane; Multi-pass membrane protein. Vacuole membrane; Multi-pass membrane protein. Endoplasmic reticulum.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for VMP1 Gene COMPARTMENTS Subcellular localization image for VMP1 gene
Compartment Confidence
endoplasmic reticulum 5
nucleus 5
plasma membrane 5
vacuole 5
extracellular 1

Gene Ontology (GO) - Cellular Components for VMP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000421 autophagosome membrane IEA,ISS --
genes like me logo Genes that share ontologies with VMP1: view

Pathways & Interactions for VMP1 Gene

SuperPathways for VMP1 Gene

genes like me logo Genes that share pathways with VMP1: view

Pathways by source for VMP1 Gene

2 R&D Systems pathways for VMP1 Gene

Gene Ontology (GO) - Biological Process for VMP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007029 endoplasmic reticulum organization IBA --
GO:0007566 embryo implantation IEA --
genes like me logo Genes that share ontologies with VMP1: view

No data available for SIGNOR curated interactions for VMP1 Gene

Drugs & Compounds for VMP1 Gene

No Compound Related Data Available

Transcripts for VMP1 Gene

Unigene Clusters for VMP1 Gene

Vacuole membrane protein 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for VMP1 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14a · 14b · 14c
SP1: - - - -
SP2:
SP3: -
SP4:
SP5: -
SP6: -
SP7:

Relevant External Links for VMP1 Gene

GeneLoc Exon Structure for
VMP1
ECgene alternative splicing isoforms for
VMP1

Expression for VMP1 Gene

mRNA expression in normal human tissues for VMP1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for VMP1 Gene

This gene is overexpressed in Whole Blood (x9.7).

Protein differential expression in normal tissues from HIPED for VMP1 Gene

This gene is overexpressed in Breast (12.5), Ovary (11.2), and Testis (10.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for VMP1 Gene



SOURCE GeneReport for Unigene cluster for VMP1 Gene Hs.444569

genes like me logo Genes that share expression patterns with VMP1: view

Protein tissue co-expression partners for VMP1 Gene

Primer Products

In Situ Assay Products

No data available for mRNA Expression by UniProt/SwissProt for VMP1 Gene

Orthologs for VMP1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for VMP1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia VMP1 36
  • 100 (a)
OneToOne
VMP1 35
  • 99.84 (n)
  • 100 (a)
cow
(Bos Taurus)
Mammalia VMP1 36
  • 96 (a)
OneToOne
VMP1 35
  • 94.5 (n)
  • 96.06 (a)
dog
(Canis familiaris)
Mammalia VMP1 35
  • 94.91 (n)
  • 96.06 (a)
VMP1 36
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Vmp1 16
Vmp1 36
  • 94 (a)
OneToOne
Vmp1 35
  • 91.05 (n)
  • 94.09 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 89 (a)
OneToMany
-- 36
  • 67 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 76 (a)
OneToMany
-- 36
  • 90 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Vmp1 35
  • 90.89 (n)
  • 94.83 (a)
chicken
(Gallus gallus)
Aves VMP1 35
  • 80.54 (n)
  • 85.47 (a)
VMP1 36
  • 85 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia VMP1 36
  • 84 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.13697 35
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.11181 35
vmp1 35
  • 76.85 (n)
  • 81.28 (a)
zebrafish
(Danio rerio)
Actinopterygii Dr.982 35
vmp1 35
  • 69.88 (n)
  • 73.58 (a)
vmp1 36
  • 73 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010304 35
  • 57.25 (n)
  • 53.63 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG32087 36
  • 43 (a)
OneToMany
Tango5 36
  • 40 (a)
OneToMany
Tango5 35
  • 56.27 (n)
  • 56.18 (a)
worm
(Caenorhabditis elegans)
Secernentea Y37D8A.22 37
  • 51 (a)
epg-3 36
  • 39 (a)
OneToOne
epg-3 35
  • 54.79 (n)
  • 49.17 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G05360 35
  • 50.64 (n)
  • 39.88 (a)
corn
(Zea mays)
Liliopsida Zm.17241 35
rice
(Oryza sativa)
Liliopsida Os.14351 35
Os01g0778700 35
  • 51.13 (n)
  • 40.96 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.10369 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6481 36
  • 58 (a)
OneToOne
Species with no ortholog for VMP1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for VMP1 Gene

ENSEMBL:
Gene Tree for VMP1 (if available)
TreeFam:
Gene Tree for VMP1 (if available)

Paralogs for VMP1 Gene

Pseudogenes.org Pseudogenes for VMP1 Gene

genes like me logo Genes that share paralogs with VMP1: view

No data available for Paralogs for VMP1 Gene

Variants for VMP1 Gene

Sequence variations from dbSNP and Humsavar for VMP1 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs950578 -- 59,756,231(+) CTGAA(A/G)AGAAT intron-variant
rs1018242 -- 59,728,159(-) GAAAG(C/G)CTATA intron-variant
rs1292060 -- 59,836,488(-) ATGTG(C/T)GGTGG intron-variant
rs1292061 -- 59,833,869(-) CCAAA(C/T)GTTAC intron-variant
rs1292062 -- 59,831,783(-) ataaa(A/T)ttttt intron-variant

Structural Variations from Database of Genomic Variants (DGV) for VMP1 Gene

Variant ID Type Subtype PubMed ID
nsv833501 CNV Loss 17160897
nsv908651 CNV Loss 21882294
dgv3238n71 CNV Loss 21882294
esv2483856 CNV Deletion 19546169
nsv512497 CNV Loss 21212237
esv2716083 CNV Deletion 23290073
esv2662935 CNV Deletion 23128226
esv998658 CNV Gain 20482838
nsv821151 CNV Deletion 20802225
nsv828072 CNV Gain+Loss 20364138

Variation tolerance for VMP1 Gene

Residual Variation Intolerance Score: 20.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.74; 15.64% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VMP1 Gene

HapMap Linkage Disequilibrium report
VMP1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VMP1 Gene

Disorders for VMP1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for VMP1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
acute pancreatitis
  • acute necrotizing pancreatitis
- elite association - COSMIC cancer census association via MalaCards
Search VMP1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for VMP1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VMP1
genes like me logo Genes that share disorders with VMP1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VMP1 Gene

Publications for VMP1 Gene

  1. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S. … Poustka A. (Genome Res. 2001) 2 3 4 67
  2. Cloning and expression of the rat vacuole membrane protein 1 (VMP1), a new gene activated in pancreas with acute pancreatitis, which promotes vacuole formation. (PMID: 11785947) Dusetti N.J. … Iovanna J.L. (Biochem. Biophys. Res. Commun. 2002) 2 3
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  4. VMP1 related autophagy and apoptosis in colorectal cancer cells: VMP1 regulates cell death. (PMID: 24365149) Qian Q. … Gu W. (Biochem. Biophys. Res. Commun. 2013) 3
  5. [Expression of vacuole membrane protein 1 and its prognostic value in invasive ductal carcinoma of the breast]. (PMID: 23710913) Liu F. … Zhang T.X. (Zhonghua Bing Li Xue Za Zhi 2013) 3

Products for VMP1 Gene

Sources for VMP1 Gene

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