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    Pcdhgb8 protocadherin gamma subfamily B, 8 [ Mus musculus (house mouse) ]

    Gene ID: 93705, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Pcdhgb8provided by MGI
    Official Full Name
    protocadherin gamma subfamily B, 8provided by MGI
    Primary source
    MGI:MGI:1935200
    See related
    AllianceGenome:MGI:1935200
    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
    Summary
    Located in membrane. Orthologous to human PCDHGB3 (protocadherin gamma subfamily B, 3) and PCDHGB8P (protocadherin gamma subfamily B, 8 pseudogene). [provided by Alliance of Genome Resources, Nov 2024]
    Annotation information
    Note: Genetic polymorphisms result in both protein coding and non-coding alleles of this gene.
    Expression
    Broad expression in frontal lobe adult (RPKM 48.5), whole brain E14.5 (RPKM 44.1) and 24 other tissues See more
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    Genomic context

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    See Pcdhgb8 in Genome Data Viewer
    Location:
    18 B3; 18 19.63 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (37894854..37973542)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (37761801..37840489)

    Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene protocadherin alpha 4B Neighboring gene predicted gene, 38666 Neighboring gene predicted gene, 38667 Neighboring gene RIKEN cDNA 3222401L13 gene Neighboring gene STARR-seq mESC enhancer starr_44317 Neighboring gene protocadherin gamma subfamily A, 1 Neighboring gene protocadherin gamma subfamily A, 2 Neighboring gene protocadherin gamma subfamily A, 3 Neighboring gene protocadherin gamma subfamily B, 1 Neighboring gene protocadherin gamma subfamily A, 4 Neighboring gene protocadherin gamma subfamily B, 2 Neighboring gene protocadherin gamma subfamily A, 5 Neighboring gene STARR-seq mESC enhancer starr_44321 Neighboring gene protocadherin gamma subfamily A, 6 Neighboring gene predicted gene, 24401 Neighboring gene protocadherin gamma subfamily A, 7 Neighboring gene protocadherin gamma subfamily B, 4 Neighboring gene protocadherin gamma subfamily A, 8 Neighboring gene protocadherin gamma subfamily B, 5 Neighboring gene STARR-seq mESC enhancer starr_44322 Neighboring gene protocadherin gamma subfamily A, 10 Neighboring gene protocadherin gamma subfamily A, 9 Neighboring gene protocadherin gamma subfamily B, 6 Neighboring gene protocadherin gamma subfamily A, 11 Neighboring gene protocadherin gamma subfamily B, 7 Neighboring gene protocadherin gamma subfamily A, 12 Neighboring gene STARR-seq mESC enhancer starr_44324 Neighboring gene cDNA sequence BC037039 Neighboring gene protocadherin gamma subfamily C, 3 Neighboring gene STARR-seq mESC enhancer starr_44330 Neighboring gene STARR-seq mESC enhancer starr_44331 Neighboring gene protocadherin gamma subfamily C, 4 Neighboring gene protocadherin gamma subfamily C, 5 Neighboring gene predicted gene, 29994 Neighboring gene STARR-seq mESC enhancer starr_44332 Neighboring gene STARR-positive B cell enhancer ABC_E8711 Neighboring gene microRNA 6979 Neighboring gene diaphanous related formin 1 Neighboring gene STARR-seq mESC enhancer starr_44334 Neighboring gene STARR-positive B cell enhancer ABC_E1953 Neighboring gene histone deacetylase 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data 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

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    Related articles in PubMed

    1. The b1 isoform of protocadherin-gamma (Pcdhgamma) interacts with the microtubule-destabilizing protein SCG10. Gayet O, et al. FEBS Lett, 2004 Dec 3. PMID 15581637
    2. Maturation of postnatally generated olfactory bulb granule cells depends on functional γ-protocadherin expression. Ledderose J, et al. Sci Rep, 2013. PMID 23515096, Free PMC Article
    3. Functional significance of isoform diversification in the protocadherin gamma gene cluster. Chen WV, et al. Neuron, 2012 Aug 9. PMID 22884324, Free PMC Article
    4. A differential developmental pattern of spinal interneuron apoptosis during synaptogenesis: insights from genetic analyses of the protocadherin-gamma gene cluster. Prasad T, et al. Development, 2008 Dec. PMID 19029045, Free PMC Article
    5. Interaction with protocadherin-gamma regulates the cell surface expression of protocadherin-alpha. Murata Y, et al. J Biol Chem, 2004 Nov 19. PMID 15347688

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    located_in membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protocadherin gamma subfamily B, 8

    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_033580.3 → NP_291058.1  protocadherin gamma subfamily B, 8 precursor

      See identical proteins and their annotated locations for NP_291058.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1, coding) represents the functional allele that is not present in some mouse strains, including the C57BL/6 strain of the reference genome.
      Source sequence(s)
      BC139099
      UniProtKB/TrEMBL
      Q91XX2
      Conserved Domains (4) summary
      cd11304
      Location:247 → 344
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:33 → 113
      Cadherin_2; Cadherin-like
      pfam15974
      Location:808 → 904
      Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region
      pfam16492
      Location:688 → 764
      Cadherin_C_2; Cadherin cytoplasmic C-terminal

    RNA

    1. NR_160734.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1, non-coding) contains a premature stop codon, and represents the non-functional allele present in some mouse strains, including the C57BL/6 strain of the reference genome. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, coding, renders this transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC020971, AC129315

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000084.7 Reference GRCm39 C57BL/6J

      Range
      37894854..37973542
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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