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VPS26B VPS26 retromer complex component B [ Homo sapiens (human) ]

Gene ID: 112936, updated on 5-Mar-2024

Summary

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Official Symbol
VPS26Bprovided by HGNC
Official Full Name
VPS26 retromer complex component Bprovided by HGNC
Primary source
HGNC:HGNC:28119
See related
Ensembl:ENSG00000151502 MIM:610027; AllianceGenome:HGNC:28119
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
Pep8b
Summary
Predicted to be involved in intracellular protein transport and retrograde transport, endosome to Golgi. Predicted to act upstream of or within cellular response to interferon-gamma. Predicted to be located in early endosome and late endosome. Predicted to be part of retromer complex. Predicted to be active in endosome. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in brain (RPKM 21.5), skin (RPKM 15.9) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
11q25
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (134224671..134247788)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (134266510..134289633)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (134094565..134117682)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene junctional adhesion molecule 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:134027645-134028146 Neighboring gene small nucleolar RNA, C/D box 153 Neighboring gene non-SMC condensin II complex subunit D3 Neighboring gene zinc finger protein 628 pseudogene Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:134045931-134047130 Neighboring gene MPRA-validated peak1520 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4093 Neighboring gene MPRA-validated peak1521 silencer Neighboring gene MPRA-validated peak1522 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5768 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4094 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5769 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5770 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5771 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4095 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4096 Neighboring gene thymocyte nuclear protein 1 Neighboring gene acyl-CoA dehydrogenase family member 8

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Vps26B-retromer negatively regulates plasma membrane resensitization of PAR-2. Bugarcic A, et al. Cell Biol Int, 2015 Nov. PMID 26113136
  2. A novel mammalian retromer component, Vps26B. Kerr MC, et al. Traffic, 2005 Nov. PMID 16190980
  3. Retromer binding to FAM21 and the WASH complex is perturbed by the Parkinson disease-linked VPS35(D620N) mutation. McGough IJ, et al. Curr Biol, 2014 Jul 21. PMID 24980502, Free PMC Article
  4. Vps26A and Vps26B subunits define distinct retromer complexes. Bugarcic A, et al. Traffic, 2011 Dec. PMID 21920005
  5. Retromer: Structure, function, and roles in mammalian disease. Trousdale C, et al. Eur J Cell Biol, 2015 Nov. PMID 26220253

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC10485

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in cellular response to type II interferon IEA
Inferred from Electronic Annotation
more info
  
involved_in intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of macroautophagy TAS
Traceable Author Statement
more info
 PubMed 
involved_in retrograde transport, endosome to Golgi IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in retrograde transport, endosome to Golgi ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in retrograde transport, endosome to Golgi NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in early endosome ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in endosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in late endosome ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in phagocytic vesicle IEA
Inferred from Electronic Annotation
more info
  
part_of retromer complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of retromer complex ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of retromer, cargo-selective complex NAS
Non-traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
vacuolar protein sorting-associated protein 26B
Names
vesicle protein sorting 26B

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_052875.5 → NP_443107.1  vacuolar protein sorting-associated protein 26B

    See identical proteins and their annotated locations for NP_443107.1

    Status: VALIDATED

    Source sequence(s)
    AP000859, AV735504, BC007799, BC013255, BC014128, BC098386
    Consensus CDS
    CCDS8495.1
    UniProtKB/Swiss-Prot
    Q4G0F5, Q96A55
    Related
    ENSP00000281187.5, ENST00000281187.10
    Conserved Domains (1) summary
    pfam03643
    Location:6 → 281
    Vps26; Vacuolar protein sorting-associated protein 26

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    134224671..134247788
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011542565.4 → XP_011540867.1  vacuolar protein sorting-associated protein 26B isoform X1

    Conserved Domains (1) summary
    cl22903
    Location:6 → 184
    Arrestin_N; Arrestin (or S-antigen), N-terminal domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    134266510..134289633
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054367567.1 → XP_054223542.1  vacuolar protein sorting-associated protein 26B isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q4G0F5.2 GenPept UniProtKB/Swiss-Prot:Q4G0F5

Gene LinkOut

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