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    VPS51 VPS51 subunit of GARP complex [ Homo sapiens (human) ]

    Gene ID: 738, updated on 7-Jul-2019

    Summary

    Official Symbol
    VPS51provided by HGNC
    Official Full Name
    VPS51 subunit of GARP complexprovided by HGNC
    Primary source
    HGNC:HGNC:1172
    See related
    Ensembl:ENSG00000149823 MIM:615738
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    FFR; ANG2; ANG3; C11orf2; C11orf3
    Summary
    This gene encodes a member of the vacuolar protein sorting-associated protein 51 family. The encoded protein is a component of the Golgi-associated retrograde protein complex which acts as a tethering factor for carriers in retrograde transport from the early and late endosomes to the trans-Golgi network. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2012]
    Expression
    Ubiquitous expression in ovary (RPKM 41.5), colon (RPKM 30.6) and 25 other tissues See more
    Orthologs

    Genomic context

    See VPS51 in Genome Data Viewer
    Location:
    11q13.1
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    109.20190607 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (65096115..65111862)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (64863587..64879332)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene cell division cycle associated 5 Neighboring gene zinc finger protein like 1 Neighboring gene transmembrane protein 262 Neighboring gene transmembrane 7 superfamily member 2 Neighboring gene Sharpr-MPRA regulatory region 3974 Neighboring gene zinc finger HIT-type containing 2 Neighboring gene FAU ubiquitin like and ribosomal protein S30 fusion

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    • Intra-Golgi and retrograde Golgi-to-ER traffic, organism-specific biosystem (from REACTOME)
      Intra-Golgi and retrograde Golgi-to-ER traffic, organism-specific biosystemThe mammalian Golgi complex, a central hub of both anterograde and retrograde trafficking, is a ribbon of stacked cisterna with biochemically distinct compartments (reviewed in Glick and Nakano, 2009...
    • Membrane Trafficking, organism-specific biosystem (from REACTOME)
      Membrane Trafficking, organism-specific biosystemThe secretory membrane system allows a cell to regulate delivery of newly synthesized proteins, carbohydrates, and lipids to the cell surface, a necessity for growth and homeostasis. The system is ma...
    • Retrograde transport at the Trans-Golgi-Network, organism-specific biosystem (from REACTOME)
      Retrograde transport at the Trans-Golgi-Network, organism-specific biosystemThe trans-Golgi network is the docking site for retrograde cargo from the endolysosomal system and the plasma membrane. Typical cargo includes recycling resident TGN proteins such as TGOLN2 (also kn...
    • Vesicle-mediated transport, organism-specific biosystem (from REACTOME)
      Vesicle-mediated transport, organism-specific biosystemThe transit of proteins and other cargo through the cell requires a cellular transport process in which transported substances are moved in membrane-bounded vesicles. Transported substances are enclo...

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • FLJ13879, FLJ36472

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    molecular_function ND
    No biological Data available
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    Golgi organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Golgi vesicle transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    autophagy IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    endocytic recycling IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    endocytic recycling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    lipid transport IEA
    Inferred from Electronic Annotation
    more info
     
    lysosomal transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    lysosomal transport IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    retrograde transport, endosome to Golgi IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    retrograde transport, endosome to Golgi IDA
    Inferred from Direct Assay
    more info
    PubMed 
    retrograde transport, endosome to Golgi IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    EARP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    EARP complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    GARP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    GARP complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    integral component of membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
     
    membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleolus IDA
    Inferred from Direct Assay
    more info
     
    recycling endosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    trans-Golgi network IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    trans-Golgi network membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    vacuolar protein sorting-associated protein 51 homolog
    Names
    VPS51, GARP complex subunit
    another new gene 2 protein
    protein fat-free homolog
    vacuolar protein sorting 51 homolog

    NCBI Reference Sequences (RefSeq)

    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_013265.4NP_037397.2  vacuolar protein sorting-associated protein 51 homolog

      See identical proteins and their annotated locations for NP_037397.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the shorter transcript and encodes the functional protein.
      Source sequence(s)
      AF024631, AP003068, AW007399, HY270070
      Consensus CDS
      CCDS8093.1
      UniProtKB/Swiss-Prot
      Q9UID3
      Related
      ENSP00000279281.3, ENST00000279281.8
      Conserved Domains (2) summary
      pfam08700
      Location:63147
      Vps51; Vps51/Vps67
      cl19297
      Location:101262
      Dor1; Dor1-like family

    RNA

    1. NR_073519.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AW007399, BC007198, BG391473, BI752026, BI823833, BI828867, BX401315, CD388131, HY270070

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

      Range
      65096115..65111862
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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