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    Vps29 VPS29 retromer complex component [ Mus musculus (house mouse) ]

    Gene ID: 56433, updated on 8-Aug-2021

    Summary

    Official Symbol
    Vps29provided by MGI
    Official Full Name
    VPS29 retromer complex componentprovided by MGI
    Primary source
    MGI:MGI:1928344
    See related
    Ensembl:ENSMUSG00000029462
    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
    PEP; PEP11; AW049835; 2010015D08Rik
    Expression
    Ubiquitous expression in CNS E18 (RPKM 27.9), placenta adult (RPKM 22.1) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Vps29 in Genome Data Viewer
    Location:
    5; 5 F
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (122492391..122503047)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (122354328..122364984)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (122804422..122813296)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1700112N08 gene Neighboring gene PTC7 protein phosphatase homolog Neighboring gene RAD9 checkpoint clamp component B Neighboring gene family with sequence similarity 216, member A Neighboring gene GPN-loop GTPase 3 Neighboring gene predicted gene, 32853 Neighboring gene actin related protein 2/3 complex, subunit 3

    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)
    • Gene trapped (1) 
    • Endonuclease-mediated (1) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within Golgi to vacuole transport ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    involved_in endocytic recycling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intracellular protein transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in retrograde transport, endosome to Golgi IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    part_of retromer complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of retromer complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of retromer complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of retromer, cargo-selective complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    vacuolar protein sorting-associated protein 29
    Names
    vacuolar protein sorting 29
    vacuolar sorting protein 29
    vesicle protein sorting 29
    NP_001334382.1
    NP_001346155.1
    NP_062754.1

    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_001347453.2NP_001334382.1  vacuolar protein sorting-associated protein 29 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC113285
      Consensus CDS
      CCDS84954.1
      UniProtKB/Swiss-Prot
      Q9QZ88
      Related
      ENSMUSP00000113525.2, ENSMUST00000118830.8
      Conserved Domains (1) summary
      cd07394
      Location:6183
      MPP_Vps29; Homo sapiens Vps29 and related proteins, metallophosphatase domain
    2. NM_001359226.1NP_001346155.1  vacuolar protein sorting-associated protein 29 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (3).
      Source sequence(s)
      AC113285
      Conserved Domains (1) summary
      cd07394
      Location:11188
      MPP_Vps29; Homo sapiens Vps29 and related proteins, metallophosphatase domain
    3. NM_019780.2NP_062754.1  vacuolar protein sorting-associated protein 29 isoform 2

      See identical proteins and their annotated locations for NP_062754.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AC113285
      Consensus CDS
      CCDS39256.1
      UniProtKB/Swiss-Prot
      Q9QZ88
      Related
      ENSMUSP00000121020.2, ENSMUST00000155671.8
      Conserved Domains (1) summary
      cd07394
      Location:2179
      MPP_Vps29; Homo sapiens Vps29 and related proteins, metallophosphatase domain

    RNA

    1. NR_152872.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC113285
    2. NR_152873.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC113285

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000071.7 Reference GRCm39 C57BL/6J

      Range
      122492391..122503047
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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