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

Gene ID: 738, updated on 5-Sep-2021

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; PCH13; 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
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Genomic context

See VPS51 in Genome Data Viewer
Location:
11q13.1
Exon count:
10
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (65096214..65111862)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (64863686..64879334)

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 Sharpr-MPRA regulatory region 11972 Neighboring gene transmembrane 7 superfamily member 2 Neighboring gene Sharpr-MPRA regulatory region 3974 Neighboring gene zinc finger HIT-type containing 2

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 Functions

What's a GeneRIF?

Pathways from PubChem

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

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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_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_073519.2 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)
    AP003068, AW007399, BC007198, BG391473, BI752026, CD388131, HY270070

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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
    65096214..65111862
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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