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

Gene ID: 738, updated on 14-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_073519.2 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 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 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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