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

    Gene ID: 75909, updated on 2-Nov-2024

    Summary

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    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
    Predicted to enable phospholipid scramblase activity. 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, Nov 2024]
    Expression
    Ubiquitous expression in placenta adult (RPKM 30.4), bladder adult (RPKM 28.1) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    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

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data 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

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    Related articles in PubMed

    1. VMP1 prevents Ca2+ overload in endoplasmic reticulum and maintains naive T cell survival. Liu Y, et al. J Exp Med, 2023 Jun 5. PMID 36971758, Free PMC Article
    2. VMP1 regulates hepatic lipoprotein secretion and NASH independent of autophagy. Jiang X, et al. Autophagy, 2023 Jan. PMID 35617134, Free PMC Article
    3. Loss of hepatic VMP1 trapped VLDL in the bilayer of endoplasmic reticulum membrane(☆). Ni HM, et al. Liver Res, 2023 Jun. PMID 38405163, Free PMC Article
    4. WHSC1L1-mediated epigenetic downregulation of VMP1 participates in herpes simplex virus 1 infection-induced mitophagy impairment and neuroinflammation. Yao Y, et al. Mol Immunol, 2023 Nov. PMID 37748280
    5. Loss of acinar cell VMP1 triggers spontaneous pancreatitis in mice. Wang S, et al. Autophagy, 2022 Jul. PMID 34709991, Free PMC Article

    See all (35) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. WHSC1L1-mediated epigenetic downregulation of VMP1 participates in herpes simplex virus 1 infection-induced mitophagy impairment and neuroinflammation.
      Title: WHSC1L1-mediated epigenetic downregulation of VMP1 participates in herpes simplex virus 1 infection-induced mitophagy impairment and neuroinflammation.
    2. VMP1 prevents Ca2+ overload in endoplasmic reticulum and maintains naive T cell survival.
      Title: VMP1 prevents Ca2+ overload in endoplasmic reticulum and maintains naive T cell survival.
    3. VMP1 regulates hepatic lipoprotein secretion and NASH independent of autophagy.
      Title: VMP1 regulates hepatic lipoprotein secretion and NASH independent of autophagy.
    4. Lack of VMP1 impairs hepatic lipoprotein secretion and promotes non-alcoholic steatohepatitis.
      Title: Lack of VMP1 impairs hepatic lipoprotein secretion and promotes non-alcoholic steatohepatitis.
    5. Loss of acinar cell VMP1 triggers spontaneous pancreatitis in mice.
      Title: Loss of acinar cell VMP1 triggers spontaneous pancreatitis in mice.
    6. These results suggest that VMP1 is important for the release of lipoproteins from the endoplasmic reticulum membrane to the endoplasmic reticulum lumen in addition to its previously known functions.
      Title: A critical role of VMP1 in lipoprotein secretion.
    7. these results indicate that miR-21a negatively modulates two tumor suppressor genes, miR-200c and PTEN, thereby promoting M2 macrophage transformation
      Title: miR-21a negatively modulates tumor suppressor genes PTEN and miR-200c and further promotes the transformation of M2 macrophages.
    8. It has been concluded that VMP1-mediated autophagy cooperated with Kras to promote pancreatic ductal adenocarcinoma initiation.
      Title: The pancreatitis-associated protein VMP1, a key regulator of inducible autophagy, promotes Kras(G12D)-mediated pancreatic cancer initiation.
    9. VMP1 modulates SERCA2 activity to control endoplasmic reticulum contacts for autophagosome formation.
      Title: The ER-Localized Transmembrane Protein EPG-3/VMP1 Regulates SERCA Activity to Control ER-Isolation Membrane Contacts for Autophagosome Formation.
    10. AKT1-GLI3-VMP1 pathway mediates KRAS oncogene-induced autophagy in cancer cells.
      Title: Novel AKT1-GLI3-VMP1 pathway mediates KRAS oncogene-induced autophagy in cancer cells.
    Submit: New GeneRIF Correction See all GeneRIFs (11)

    Variation

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    Alleles

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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables phospholipid scramblase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phospholipid scramblase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in Golgi organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in autophagosome assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in autophagosome assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in autophagosome membrane docking ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in autophagosome membrane docking ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in autophagy IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in autophagy ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell junction assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell junction assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in cell-cell adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell-cell adhesion ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within embryo implantation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 mitochondrion-endoplasmic reticulum membrane tethering ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in organelle localization by membrane tethering ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in organelle localization by membrane tethering ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in plasma membrane phospholipid scrambling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of ATPase-coupled calcium transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of ATPase-coupled calcium transmembrane transporter activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in autophagosome membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in autophagosome membrane ISS
    Inferred from Sequence or Structural Similarity
    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 ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in endoplasmic reticulum-Golgi intermediate compartment membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus 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
    		  

    General protein information

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    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_001356531.3 → NP_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:247 → 298
      SNARE_assoc; SNARE associated Golgi protein

    2. NM_001379040.1 → NP_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:247 → 298
      SNARE_assoc; SNARE associated Golgi protein

    3. NM_001379041.1 → NP_001365970.1  vacuole membrane protein 1 isoform b

      Status: VALIDATED

      Source sequence(s)
      AL592222, AL604063
      Conserved Domains (1) summary
      cl00429
      Location:247 → 298
      SNARE_assoc; SNARE associated Golgi protein

    4. NM_029478.6 → NP_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:247 → 298
      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)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q99KU0.2 GenPept UniProtKB/Swiss-Prot:Q99KU0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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