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Vmp1 vacuole membrane protein 1 [ Mus musculus (house mouse) ]

Gene ID: 75909, updated on 5-Apr-2024

Summary

Official Symbol
Vmp1provided by MGI
Official Full Name
vacuole membrane protein 1provided by MGI
Primary source
MGI:MGI:1923159
See related
Ensembl:ENSMUSG00000018171 AllianceGenome:MGI:1923159
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
ni-2; Tango5; Tmem49; mir-21a; 3110098I04Rik; 4930579A11Rik
Summary
Involved in autophagy and lipoprotein transport. Acts upstream of or within embryo implantation. Located in phagophore assembly site. Orthologous to human VMP1 (vacuole membrane protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in placenta adult (RPKM 30.4), bladder adult (RPKM 28.1) and 25 other tissues See more
Orthologs
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Genomic context

See Vmp1 in Genome Data Viewer
Location:
11 C; 11 51.82 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (86474684..86574662, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (86583858..86683836, complement)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E3004 Neighboring gene tubulin, delta 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:86395440-86395623 Neighboring gene VISTA enhancer mm127 Neighboring gene STARR-positive B cell enhancer ABC_E2362 Neighboring gene predicted gene 9975 Neighboring gene microRNA 21a Neighboring gene predicted gene, 46289 Neighboring gene STARR-positive B cell enhancer ABC_E3988 Neighboring gene predicted gene, 51914 Neighboring gene STARR-seq mESC enhancer starr_30272 Neighboring gene STARR-seq mESC enhancer starr_30273 Neighboring gene predicted gene 11478 Neighboring gene STARR-seq mESC enhancer starr_30274 Neighboring gene STARR-positive B cell enhancer ABC_E11770 Neighboring gene STARR-seq mESC enhancer starr_30275 Neighboring gene peptidyl-tRNA hydrolase 2 Neighboring gene STARR-positive B cell enhancer ABC_E3989 Neighboring gene STARR-positive B cell enhancer ABC_E7036 Neighboring gene clathrin heavy chain Neighboring gene STARR-seq mESC enhancer starr_30277 Neighboring gene predicted gene, 42085

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (3)  1 citation
  • Endonuclease-mediated (3) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables phospholipid scramblase activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in Golgi organization IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in autophagosome assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in autophagosome membrane docking ISO
Inferred from Sequence Orthology
more info
 
involved_in autophagy IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in autophagy IDA
Inferred from Direct Assay
more info
PubMed 
involved_in autophagy ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cell adhesion IEA
Inferred from Electronic Annotation
more info
 
involved_in cell junction assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in cell-cell adhesion ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within embryo implantation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within lipid transport IEA
Inferred from Electronic Annotation
more info
 
involved_in lipoprotein transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in lipoprotein transport ISO
Inferred from Sequence Orthology
more info
 
involved_in mitochondrion-endoplasmic reticulum membrane tethering ISO
Inferred from Sequence Orthology
more info
 
involved_in organelle localization by membrane tethering ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of ATPase-coupled calcium transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in autophagosome membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in endomembrane system IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
 
located_in endoplasmic reticulum membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
located_in phagophore assembly site IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
located_in vacuole IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
vacuole membrane protein 1
Names
NF-E2 induceble protein-2
protein ni-2
transmembrane protein 49

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_001356531.3NP_001343460.1  vacuole membrane protein 1 isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2), as well as variants 1 and 3, encodes isoform a.
    Source sequence(s)
    AL592222, AL604063
    Consensus CDS
    CCDS25203.1
    UniProtKB/Swiss-Prot
    A2V655, Q3TX07, Q8BHD3, Q99KU0
    Conserved Domains (1) summary
    cl00429
    Location:247298
    SNARE_assoc; SNARE associated Golgi protein
  2. NM_001379040.1NP_001365969.1  vacuole membrane protein 1 isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) represents the longest transcript and encodes the longer isoform (a). Variants 1-3 all encode the same isoform (a).
    Source sequence(s)
    AL592222, AL604063
    UniProtKB/Swiss-Prot
    A2V655, Q3TX07, Q8BHD3, Q99KU0
    Conserved Domains (1) summary
    cl00429
    Location:247298
    SNARE_assoc; SNARE associated Golgi protein
  3. NM_001379041.1NP_001365970.1  vacuole membrane protein 1 isoform b

    Status: VALIDATED

    Source sequence(s)
    AL592222, AL604063
    Conserved Domains (1) summary
    cl00429
    Location:247298
    SNARE_assoc; SNARE associated Golgi protein
  4. NM_029478.6NP_083754.2  vacuole membrane protein 1 isoform a

    See identical proteins and their annotated locations for NP_083754.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1), as well as variants 2 and 3, encodes isoform a.
    Source sequence(s)
    AL592222, AL604063
    Consensus CDS
    CCDS25203.1
    UniProtKB/Swiss-Prot
    A2V655, Q3TX07, Q8BHD3, Q99KU0
    Related
    ENSMUSP00000018315.4, ENSMUST00000018315.10
    Conserved Domains (1) summary
    cl00429
    Location:247298
    SNARE_assoc; SNARE associated Golgi protein

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_000077.7 Reference GRCm39 C57BL/6J

    Range
    86474684..86574662 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)