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Vps52 VPS52 GARP complex subunit [ Mus musculus (house mouse) ]

Gene ID: 224705, updated on 26-Sep-2022

Summary

Official Symbol
Vps52provided by MGI
Official Full Name
VPS52 GARP complex subunitprovided by MGI
Primary source
MGI:MGI:1330304
See related
Ensembl:ENSMUSG00000024319 AllianceGenome:MGI:1330304
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
ARE1; SAC2; tclw5; Sacm2l; D130068D18; D430041K17Rik
Summary
Predicted to enable syntaxin binding activity. Acts upstream of or within ectodermal cell differentiation and embryonic ectodermal digestive tract development. Predicted to be located in several cellular components, including Golgi apparatus; perinuclear region of cytoplasm; and recycling endosome. Predicted to be part of EARP complex and GARP complex. Is expressed in several structures, including brain; genitourinary system; heart; hemolymphoid system gland; and liver. Orthologous to human VPS52 (VPS52 subunit of GARP complex). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in adrenal adult (RPKM 27.3), thymus adult (RPKM 23.9) and 28 other tissues See more
Orthologs
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Genomic context

See Vps52 in Genome Data Viewer
Location:
17; 17 B1
Exon count:
20
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (34174753..34186012)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (33955779..33967038)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 4 Neighboring gene ribosomal protein S18 Neighboring gene predicted gene, 23111 Neighboring gene histocompatibility 2, K region locus 2 Neighboring gene predicted gene, 53998

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
t-complex lethal w5
GeneReviews: Not available

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables syntaxin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables syntaxin binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in Golgi to vacuole transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within ectodermal cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryonic ectodermal digestive tract development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in endocytic recycling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in endocytic recycling ISO
Inferred from Sequence Orthology
more info
 
involved_in lysosomal transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within lysosomal transport ISO
Inferred from Sequence Orthology
more info
PubMed 
involved_in protein targeting IMP
Inferred from Mutant Phenotype
more info
PubMed 
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
PubMed 
involved_in vesicle-mediated cholesterol transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
part_of EARP complex ISO
Inferred from Sequence Orthology
more info
PubMed 
part_of GARP complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of GARP complex ISO
Inferred from Sequence Orthology
more info
PubMed 
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
 
located_in endosome IEA
Inferred from Electronic Annotation
more info
 
located_in membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
located_in perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in recycling endosome ISO
Inferred from Sequence Orthology
more info
 

General protein information

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

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_001357329.1NP_001344258.1  vacuolar protein sorting-associated protein 52 homolog isoform 2

    Status: VALIDATED

    Source sequence(s)
    BE945926, CR974462
    Conserved Domains (1) summary
    pfam04129
    Location:1476
    Vps52; Vps52 / Sac2 family
  2. NM_001357330.1NP_001344259.1  vacuolar protein sorting-associated protein 52 homolog isoform 3

    Status: VALIDATED

    Source sequence(s)
    BE945926, CR974462
    Conserved Domains (1) summary
    cl19950
    Location:1349
    Sec3_C; Exocyst complex component Sec3
  3. NM_001379410.1NP_001366339.1  vacuolar protein sorting-associated protein 52 homolog isoform 4

    Status: VALIDATED

    Source sequence(s)
    CR974462
    Conserved Domains (1) summary
    pfam04129
    Location:94606
    Vps52; Vps52 / Sac2 family
  4. NM_001379411.1NP_001366340.1  vacuolar protein sorting-associated protein 52 homolog isoform 5

    Status: VALIDATED

    Source sequence(s)
    CR974462
    Conserved Domains (1) summary
    cl19950
    Location:1354
    Sec3_C; Exocyst complex component Sec3
  5. NM_172620.4NP_766208.2  vacuolar protein sorting-associated protein 52 homolog isoform 1

    See identical proteins and their annotated locations for NP_766208.2

    Status: VALIDATED

    Source sequence(s)
    AK051732, AK052523, BE945926, CR974462
    Consensus CDS
    CCDS37574.1
    UniProtKB/Swiss-Prot
    Q8C754, Q9QWV2
    UniProtKB/TrEMBL
    A0A8C6GZ09
    Related
    ENSMUSP00000025178.10, ENSMUST00000025178.17
    Conserved Domains (1) summary
    pfam04129
    Location:94601
    Vps52; Vps52 / Sac2 family

RefSeqs of Annotated Genomes: Mus musculus 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 GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    34174753..34186012
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030249706.1XP_030105566.1  vacuolar protein sorting-associated protein 52 homolog isoform X1

    Conserved Domains (1) summary
    pfam04129
    Location:1481
    Vps52; Vps52 / Sac2 family

RNA

  1. XR_001782066.2 RNA Sequence

  2. XR_003952110.1 RNA Sequence