Aliases for VPS26B Gene

Aliases for VPS26B Gene

  • VPS26, Retromer Complex Component B 2 3 5
  • Vacuolar Protein Sorting-Associated Protein 26B 3 4
  • Vesicle Protein Sorting 26B 3 4
  • Pep8b 2 3
  • Vacuolar Protein Sorting 26 Homolog B (S. Pombe) 2
  • MGC10485 2
  • VPS26B 5

External Ids for VPS26B Gene

Previous GeneCards Identifiers for VPS26B Gene

  • GC11P133600
  • GC11P134094
  • GC11P130050

Summaries for VPS26B Gene

GeneCards Summary for VPS26B Gene

VPS26B (VPS26, Retromer Complex Component B) is a Protein Coding gene. Diseases associated with VPS26B include Jacobsen Syndrome and Alkuraya-Kucinskas Syndrome. Among its related pathways are Endocytosis. Gene Ontology (GO) annotations related to this gene include protein transporter activity. An important paralog of this gene is VPS26A.

UniProtKB/Swiss-Prot Summary for VPS26B Gene

  • Acts as component of the retromer cargo-selective complex (CSC). The CSC is believed to be the core functional component of retromer or respective retromer complex variants acting to prevent missorting of selected transmembrane cargo proteins into the lysosomal degradation pathway. The recruitment of the CSC to the endosomal membrane involves RAB7A and SNX3. The SNX-BAR retromer mediates retrograde transport of cargo proteins from endosomes to the trans-Golgi network (TGN) and is involved in endosome-to-plasma membrane transport for cargo protein recycling. The SNX3-retromer mediates the retrograde transport of WLS distinct from the SNX-BAR retromer pathway. The SNX27-retromer is believed to be involved in endosome-to-plasma membrane trafficking and recycling of a broad spectrum of cargo proteins. The CSC seems to act as recruitment hub for other proteins, such as the WASH complex and TBC1D5. May be involved in retrograde transport of SORT1 but not of IGF2R. Acts redundantly with VSP26A in SNX-27 mediated endocytic recycling of SLC2A1/GLUT1 (By similarity).

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for VPS26B Gene

Genomics for VPS26B Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for VPS26B Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around VPS26B on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for VPS26B

Top Transcription factor binding sites by QIAGEN in the VPS26B gene promoter:
  • AML1a
  • AREB6
  • HNF-4alpha1
  • HNF-4alpha2
  • MAZR
  • MRF-2
  • Pax-2
  • Pax-2a
  • POU2F1
  • POU2F1a

Genomic Locations for VPS26B Gene

Latest Assembly
chr11:134,224,664-134,247,788
(GRCh38/hg38)
Size:
23,125 bases
Orientation:
Plus strand

Previous Assembly
chr11:134,094,565-134,117,682
(GRCh37/hg19 by Entrez Gene)
Size:
23,118 bases
Orientation:
Plus strand

chr11:134,094,539-134,117,686
(GRCh37/hg19 by Ensembl)
Size:
23,148 bases
Orientation:
Plus strand

Genomic View for VPS26B Gene

Genes around VPS26B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VPS26B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VPS26B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VPS26B Gene

Proteins for VPS26B Gene

  • Protein details for VPS26B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q4G0F5-VP26B_HUMAN
    Recommended name:
    Vacuolar protein sorting-associated protein 26B
    Protein Accession:
    Q4G0F5
    Secondary Accessions:
    • Q96A55

    Protein attributes for VPS26B Gene

    Size:
    336 amino acids
    Molecular mass:
    39155 Da
    Quaternary structure:
    • Component of the heterotrimeric retromer cargo-selective complex (CSC), also described as vacuolar protein sorting VPS subcomplex (VPS,) formed by VPS26 (VPS26A or VPS26B), VPS29 and VPS35. The CSC has a highly elongated structure with VPS26 and VPS29 binding independently at opposite distal ends of VPS35 as central platform. The CSC is believed to associate with variable sorting nexins to form functionally distinct retromer complex variants. The originally described retromer complex (also called SNX-BAR retromer) is a pentamer containing the CSC and a heterodimeric membrane-deforming subcomplex formed between SNX1 or SNX2 and SNX5 or SNX6 (also called SNX-BAR subcomplex); the respective CSC and SNX-BAR subcomplexes associate with low affinity. The CSC associates with SNX3 to form a SNX3-retromer complex. The CSC associates with SNX27, the WASH complex and the SNX-BAR subcomplex to form the SNX27-retromer complex. Interacts with VPS29, VPS35, TBC1D5, GOLPH3, SNX27 (By similarity).

neXtProt entry for VPS26B Gene

Post-translational modifications for VPS26B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for VPS26B Gene

No data available for DME Specific Peptides for VPS26B Gene

Domains & Families for VPS26B Gene

Gene Families for VPS26B Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for VPS26B Gene

InterPro:
Blocks:
  • Vacuolar protein sorting-associated protein 26
ProtoNet:

Suggested Antigen Peptide Sequences for VPS26B Gene

GenScript: Design optimal peptide antigens:
  • Vesicle protein sorting 26B (VP26B_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q4G0F5

UniProtKB/Swiss-Prot:

VP26B_HUMAN :
  • Belongs to the VPS26 family.
Family:
  • Belongs to the VPS26 family.
genes like me logo Genes that share domains with VPS26B: view

Function for VPS26B Gene

Molecular function for VPS26B Gene

UniProtKB/Swiss-Prot Function:
Acts as component of the retromer cargo-selective complex (CSC). The CSC is believed to be the core functional component of retromer or respective retromer complex variants acting to prevent missorting of selected transmembrane cargo proteins into the lysosomal degradation pathway. The recruitment of the CSC to the endosomal membrane involves RAB7A and SNX3. The SNX-BAR retromer mediates retrograde transport of cargo proteins from endosomes to the trans-Golgi network (TGN) and is involved in endosome-to-plasma membrane transport for cargo protein recycling. The SNX3-retromer mediates the retrograde transport of WLS distinct from the SNX-BAR retromer pathway. The SNX27-retromer is believed to be involved in endosome-to-plasma membrane trafficking and recycling of a broad spectrum of cargo proteins. The CSC seems to act as recruitment hub for other proteins, such as the WASH complex and TBC1D5. May be involved in retrograde transport of SORT1 but not of IGF2R. Acts redundantly with VSP26A in SNX-27 mediated endocytic recycling of SLC2A1/GLUT1 (By similarity).

Phenotypes From GWAS Catalog for VPS26B Gene

Gene Ontology (GO) - Molecular Function for VPS26B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 26496610
genes like me logo Genes that share ontologies with VPS26B: view
genes like me logo Genes that share phenotypes with VPS26B: view

Animal Models for VPS26B Gene

MGI Knock Outs for VPS26B:

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for VPS26B

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for VPS26B Gene

Localization for VPS26B Gene

Subcellular locations from UniProtKB/Swiss-Prot for VPS26B Gene

Cytoplasm. Membrane. Peripheral membrane protein. Early endosome. Late endosome. Note=Localizes to early and late endosomal structures (By similarity). {ECO:0000250 UniProtKB:Q8C0E2}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for VPS26B gene
Compartment Confidence
endosome 4
cytosol 4
nucleus 2
lysosome 2
golgi apparatus 2
plasma membrane 1
cytoskeleton 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for VPS26B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005768 endosome IEA,IBA 21873635
GO:0005769 early endosome ISS --
GO:0005770 late endosome ISS --
GO:0005829 cytosol IEA --
genes like me logo Genes that share ontologies with VPS26B: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for VPS26B Gene

Pathways & Interactions for VPS26B Gene

PathCards logo

SuperPathways for VPS26B Gene

SuperPathway Contained pathways
1 Endocytosis
genes like me logo Genes that share pathways with VPS26B: view

Pathways by source for VPS26B Gene

1 KEGG pathway for VPS26B Gene

Gene Ontology (GO) - Biological Process for VPS26B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport IEA,IBA 21873635
GO:0015031 protein transport IEA --
GO:0016241 regulation of macroautophagy TAS 26172538
GO:0042147 retrograde transport, endosome to Golgi NAS 26220253
GO:0071346 cellular response to interferon-gamma IEA --
genes like me logo Genes that share ontologies with VPS26B: view

No data available for SIGNOR curated interactions for VPS26B Gene

Drugs & Compounds for VPS26B Gene

No Compound Related Data Available

Transcripts for VPS26B Gene

mRNA/cDNA for VPS26B Gene

1 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
7 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for VPS26B

Alternative Splicing Database (ASD) splice patterns (SP) for VPS26B Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8
SP1: - - -
SP2: -
SP3: - - - -
SP4:

Relevant External Links for VPS26B Gene

GeneLoc Exon Structure for
VPS26B

Expression for VPS26B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for VPS26B Gene

Protein differential expression in normal tissues from HIPED for VPS26B Gene

This gene is overexpressed in Frontal cortex (7.0) and Peripheral blood mononuclear cells (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for VPS26B Gene



Protein tissue co-expression partners for VPS26B Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for VPS26B

SOURCE GeneReport for Unigene cluster for VPS26B Gene:

Hs.334684

Evidence on tissue expression from TISSUES for VPS26B Gene

  • Eye(4.4)
  • Lung(4.4)
  • Liver(4.2)
  • Nervous system(4)
  • Skin(2.1)
genes like me logo Genes that share expression patterns with VPS26B: view

Primer products for research

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for VPS26B Gene

Orthologs for VPS26B Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for VPS26B Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia VPS26B 30 31
  • 99.5 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia VPS26B 31
  • 96 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia VPS26B 30 31
  • 93.07 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Vps26b 30 17 31
  • 92.46 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Vps26b 30
  • 91.77 (n)
Cow
(Bos Taurus)
Mammalia VPS26B 30 31
  • 87.9 (n)
OneToOne
Chicken
(Gallus gallus)
Aves VPS26B 30 31
  • 82.24 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia VPS26B 31
  • 93 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia vps26b 30
  • 78.3 (n)
Zebrafish
(Danio rerio)
Actinopterygii vps26bl 31
  • 90 (a)
OneToMany
vps26b 31
  • 85 (a)
OneToMany
Dr.4181 30
Fruit Fly
(Drosophila melanogaster)
Insecta Vps26 30 31
  • 70.82 (n)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea vps-26 31
  • 49 (a)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PEP8 31
  • 34 (a)
OneToMany
Barley
(Hordeum vulgare)
Liliopsida Hv.2754 30
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.2536 31
  • 63 (a)
OneToMany
Sea Vase
(Ciona intestinalis)
Ascidiacea Cin.2076 30
Species where no ortholog for VPS26B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for VPS26B Gene

ENSEMBL:
Gene Tree for VPS26B (if available)
TreeFam:
Gene Tree for VPS26B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for VPS26B: view image

Paralogs for VPS26B Gene

Paralogs for VPS26B Gene

(1) SIMAP similar genes for VPS26B Gene using alignment to 2 proteins:

  • VP26B_HUMAN
  • H0YCI7_HUMAN

Pseudogenes.org Pseudogenes for VPS26B Gene

genes like me logo Genes that share paralogs with VPS26B: view

Variants for VPS26B Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for VPS26B Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for VPS26B Gene

Variant ID Type Subtype PubMed ID
esv2745323 CNV deletion 23290073
esv3892114 CNV gain 25118596
nsv521581 CNV gain 19592680
nsv826147 CNV gain 20364138
nsv832299 CNV loss 17160897

Variation tolerance for VPS26B Gene

Residual Variation Intolerance Score: 14.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.31; 6.92% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for VPS26B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
VPS26B

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for VPS26B Gene

Disorders for VPS26B Gene

MalaCards: The human disease database

(3) MalaCards diseases for VPS26B Gene - From: CVR and COP

- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for VPS26B

genes like me logo Genes that share disorders with VPS26B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VPS26B Gene

Publications for VPS26B Gene

  1. Vps26A and Vps26B subunits define distinct retromer complexes. (PMID: 21920005) Bugarcic A … Teasdale RD (Traffic (Copenhagen, Denmark) 2011) 2 3
  2. A novel mammalian retromer component, Vps26B. (PMID: 16190980) Kerr MC … Teasdale RD (Traffic (Copenhagen, Denmark) 2005) 2 3
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  4. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  5. Global Interactome Mapping of Mitochondrial Intermembrane Space Proteases Identifies a Novel Function for HTRA2. (PMID: 31617661) Botham A … Schimmer A (Proteomics 2019) 3

Products for VPS26B Gene

Sources for VPS26B Gene