Format

Send to:

Choose Destination

Vps53 VPS53 GARP complex subunit [ Mus musculus (house mouse) ]

Gene ID: 68299, updated on 5-Aug-2018

Summary

Official Symbol
Vps53provided by MGI
Official Full Name
VPS53 GARP complex subunitprovided by MGI
Primary source
MGI:MGI:1915549
See related
Ensembl:ENSMUSG00000017288 Vega:OTTMUSG00000006225
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
Hccs1; 2010002A08Rik; 2310040I21Rik; 3100002B05Rik
Expression
Ubiquitous expression in CNS E18 (RPKM 8.3), cerebellum adult (RPKM 8.2) and 28 other tissues See more
Orthologs

Genomic context

See Vps53 in Genome Data Viewer
Location:
11; 11 B5
Exon count:
24
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 11 NC_000077.6 (76046226..76179630, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (75859728..75993132, complement)

Chromosome 11 - NC_000077.6Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1700016K19 gene Neighboring gene refilin B Neighboring gene predicted gene, 46252 Neighboring gene uncharacterized LOC108167850 Neighboring gene family with sequence similarity 57, member A Neighboring gene gem nuclear organelle associated protein 4

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)

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Potential readthrough

Included gene: Glod4

Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
endocytic recycling ISO
Inferred from Sequence Orthology
more info
 
lysosomal transport ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
EARP complex ISO
Inferred from Sequence Orthology
more info
PubMed 
GARP complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
GARP complex ISO
Inferred from Sequence Orthology
more info
PubMed 
Golgi apparatus ISO
Inferred from Sequence Orthology
more info
 
cytosol ISO
Inferred from Sequence Orthology
more info
 
endosome IEA
Inferred from Electronic Annotation
more info
 
membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
 
recycling endosome ISO
Inferred from Sequence Orthology
more info
PubMed 
trans-Golgi network ISO
Inferred from Sequence Orthology
more info
PubMed 

General protein information

Preferred Names
vacuolar protein sorting-associated protein 53 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_001364738.1NP_001351667.1  vacuolar protein sorting-associated protein 53 homolog isoform 2

    Status: VALIDATED

    Source sequence(s)
    AK008026, AK009586, AL591129
    Conserved Domains (1) summary
    pfam04100
    Location:4061
    Vps53_N; Vps53-like, N-terminal
  2. NM_026664.4NP_080940.2  vacuolar protein sorting-associated protein 53 homolog isoform 1

    See identical proteins and their annotated locations for NP_080940.2

    Status: VALIDATED

    Source sequence(s)
    AK009586, AK033495
    Consensus CDS
    CCDS25060.1
    UniProtKB/Swiss-Prot
    Q8CCB4
    Related
    ENSMUSP00000061317.4, OTTMUSP00000006529, ENSMUST00000056601.10
    Conserved Domains (1) summary
    pfam04100
    Location:40453
    Vps53_N; Vps53-like, N-terminal

RNA

  1. NR_157296.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AK009586, CA325661

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000077.6 Reference GRCm38.p4 C57BL/6J

    Range
    76046226..76179630 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006534052.3XP_006534115.1  vacuolar protein sorting-associated protein 53 homolog isoform X1

    Conserved Domains (1) summary
    pfam04100
    Location:15428
    Vps53_N; Vps53-like, N-terminal
  2. XM_006534053.3XP_006534116.1  vacuolar protein sorting-associated protein 53 homolog isoform X2

    Conserved Domains (1) summary
    pfam04100
    Location:1330
    Vps53_N; Vps53-like, N-terminal
Support Center