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

    Gene ID: 112936, updated on 27-Nov-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 type II interferon. Predicted to be located in early endosome and late endosome. Predicted to be part of retromer complex. Predicted to be active in glutamatergic synapse; postsynaptic early endosome; and postsynaptic recycling endosome. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in brain (RPKM 21.5), skin (RPKM 15.9) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See VPS26B in Genome Data Viewer
    Location:
    11q25
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (134224671..134247788)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (134266510..134289633)
    RS_2024_09 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. Vps26A and Vps26B subunits define distinct retromer complexes. Bugarcic A, et al. Traffic, 2011 Dec. PMID 21920005
    4. 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
    5. Retromer: Structure, function, and roles in mammalian disease. Trousdale C, et al. Eur J Cell Biol, 2015 Nov. PMID 26220253

    See all (37) 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)

    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 regulation of neurotransmitter receptor localization to postsynaptic specialization membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 glutamatergic synapse IEA
    Inferred from Electronic Annotation
    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
    		  
    located_in postsynaptic early endosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in postsynaptic recycling endosome 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_2024_08

    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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