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vps52 VPS52 subunit of GARP complex [ Danio rerio (zebrafish) ]

Gene ID: 556724, updated on 4-Jan-2025

Summary

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Official Symbol
vps52provided by ZNC
Official Full Name
VPS52 subunit of GARP complexprovided by ZNC
Primary source
ZFIN:ZDB-GENE-010430-2
See related
Ensembl:ENSDARG00000099258 AllianceGenome:ZFIN:ZDB-GENE-010430-2
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
sacm2l; fb94c11; wu:fb94c11
Summary
Predicted to enable syntaxin binding activity. Predicted to be involved in endosomal transport and vacuolar transport. Predicted to act upstream of or within protein transport. Predicted to be located in Golgi apparatus. Predicted to be part of GARP complex. Orthologous to human VPS52 (VPS52 subunit of GARP complex). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
human mouse all
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Genomic context

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See vps52 in Genome Data Viewer
Location:
chromosome: 19
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (18627288..18649750)
105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (19164196..19186911)

Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene FKBP prolyl isomerase 10a Neighboring gene uncharacterized LOC103909220 Neighboring gene ribosomal protein S18 Neighboring gene ST3 beta-galactoside alpha-2,3-sialyltransferase 1, like 3 Neighboring gene uncharacterized LOC568019 Neighboring gene lymphocyte antigen-6, epidermis

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Conservation of Mhc class III region synteny between zebrafish and human as determined by radiation hybrid mapping. Sültmann H, et al. J Immunol, 2000 Dec 15. PMID 11120825
  2. Expressed sequence tag analysis of expression profiles of zebrafish testis and ovary. Zeng S, et al. Gene, 2002 Jul 10. PMID 12234666
  3. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables syntaxin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in Golgi to vacuole transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in endocytic recycling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in lysosomal transport IBA
Inferred from Biological aspect of Ancestor
more info
  
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
  
Component Evidence Code Pubs
part_of GARP complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
vacuolar protein sorting-associated protein 52 homolog
Names
vacuolar protein sorting 52 homolog

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007130.7 Reference GRCz11 Primary Assembly

    Range
    18627288..18649750
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068215267.1 → XP_068071368.1  vacuolar protein sorting-associated protein 52 homolog isoform X1

    UniProtKB/TrEMBL
    A0A0R4IY52, A0A8M3AK60
    Related
    ENSDARP00000140259.1, ENSDART00000167245.2

  2. XM_068215268.1 → XP_068071369.1  vacuolar protein sorting-associated protein 52 homolog isoform X2

    UniProtKB/TrEMBL
    A0A8M9PSC6
Nucleotide Protein Strain
Heading Accession and Version

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