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    Vps11 VPS11, CORVET/HOPS core subunit [ Mus musculus (house mouse) ]

    Gene ID: 71732, updated on 9-Dec-2024

    Summary

    Official Symbol
    Vps11provided by MGI
    Official Full Name
    VPS11, CORVET/HOPS core subunitprovided by MGI
    Primary source
    MGI:MGI:1918982
    See related
    Ensembl:ENSMUSG00000032127 AllianceGenome:MGI:1918982
    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
    1200011A11Rik
    Summary
    Predicted to enable several functions, including protein-macromolecule adaptor activity; syntaxin binding activity; and ubiquitin protein ligase activity. Predicted to be involved in several processes, including negative regulation of intracellular estrogen receptor signaling pathway; positive regulation of early endosome to late endosome transport; and vesicle organization. Located in actin filament and early endosome. Part of AP-3 adaptor complex and CORVET complex. Is active in presynaptic active zone. Human ortholog(s) of this gene implicated in dystonia 32 and hypomyelinating leukodystrophy 12. Orthologous to human VPS11 (VPS11 core subunit of CORVET and HOPS complexes). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in genital fat pad adult (RPKM 17.1), adrenal adult (RPKM 17.0) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Vps11 in Genome Data Viewer
    Location:
    9 A5.2; 9 24.84 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (44259046..44272970, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (44347749..44361673, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene dolichyl-phosphate N-acetylglucosaminephosphotransferase 1 Neighboring gene STARR-seq mESC enhancer starr_23963 Neighboring gene H2A.X variant histone Neighboring gene hydroxymethylbilane synthase Neighboring gene STARR-positive B cell enhancer ABC_E710 Neighboring gene STARR-positive B cell enhancer ABC_E6726 Neighboring gene predicted gene, 40516 Neighboring gene predicted gene 10080

    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

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (4) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein-macromolecule adaptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables syntaxin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in autophagy IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in endosomal vesicle fusion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in endosome organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in endosome to lysosome transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of intracellular estrogen receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in organelle fusion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of early endosome to late endosome transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of organelle assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in vacuole organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in vesicle docking involved in exocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    part_of AP-3 adaptor complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of CORVET complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of HOPS complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of HOPS complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in actin filament IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in autophagosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in clathrin-coated vesicle IEA
    Inferred from Electronic Annotation
    more info
     
    located_in early endosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    colocalizes_with early endosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endocytic vesicle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endocytic vesicle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
     
    colocalizes_with late endosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in late endosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in late endosome membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in lysosomal membrane IEA
    Inferred from Electronic Annotation
    more info
     
    colocalizes_with lysosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in lysosome ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in presynaptic active zone IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    vacuolar protein sorting-associated protein 11 homolog
    Names
    vacuolar protein sorting 11

    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_001357393.1NP_001344322.1  vacuolar protein sorting-associated protein 11 homolog isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice junction compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      AC122428
      Conserved Domains (3) summary
      pfam00637
      Location:55174
      Clathrin; Region in Clathrin and VPS
      pfam12451
      Location:502545
      VPS11_C; Vacuolar protein sorting protein 11 C terminal
      cd16688
      Location:458501
      RING-H2_Vps11; RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 11 homolog (Vps11) and similar proteins
    2. NM_027889.2NP_082165.1  vacuolar protein sorting-associated protein 11 homolog isoform 1

      See identical proteins and their annotated locations for NP_082165.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC122428, AK004695, BC029004
      Consensus CDS
      CCDS40599.1
      UniProtKB/Swiss-Prot
      Q5FWZ1, Q91W86, Q9DBX8
      UniProtKB/TrEMBL
      Q8C027
      Related
      ENSMUSP00000034644.9, ENSMUST00000034644.10
      Conserved Domains (5) summary
      smart00299
      Location:411535
      CLH; Clathrin heavy chain repeat homology
      cd00162
      Location:821860
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      pfam00637
      Location:417536
      Clathrin; Region in Clathrin and VPS
      pfam12451
      Location:862907
      VPS11_C; Vacuolar protein sorting protein 11 C terminal
      cl02567
      Location:142292
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    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_000075.7 Reference GRCm39 C57BL/6J

      Range
      44259046..44272970 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_001779011.3 RNA Sequence

      Related
      ENSMUST00000214510.2