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    Pcdhgc5 protocadherin gamma subfamily C, 5 [ Mus musculus (house mouse) ]

    Gene ID: 93708, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Pcdhgc5provided by MGI
    Official Full Name
    protocadherin gamma subfamily C, 5provided by MGI
    Primary source
    MGI:MGI:1935205
    See related
    Ensembl:ENSMUSG00000102543 AllianceGenome:MGI:1935205
    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
    Acts upstream of or within negative regulation of neuron apoptotic process and synapse organization. Located in membrane. Is expressed in brain and cerebellum. Orthologous to human PCDHGC5 (protocadherin gamma subfamily C, 5). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in frontal lobe adult (RPKM 53.6), cortex adult (RPKM 49.3) and 24 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    18 B3; 18 19.69 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (37952599..37974926)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (37819546..37841873)

    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 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 A, 11 Neighboring gene protocadherin gamma subfamily B, 6 Neighboring gene protocadherin gamma subfamily A, 12 Neighboring gene protocadherin gamma subfamily B, 7 Neighboring gene STARR-seq mESC enhancer starr_44324 Neighboring gene protocadherin gamma subfamily B, 8 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 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
    • 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. Regulation of Ca(2+)/calmodulin-dependent protein kinase phosphatase (CaMKP/PPM1F) by protocadherin-γC5 (Pcdh-γC5). Onouchi T, et al. Arch Biochem Biophys, 2015 Nov 1. PMID 26386307
    2. Proteomics analysis reveals overlapping functions of clustered protocadherins. Han MH, et al. Mol Cell Proteomics, 2010 Jan. PMID 19843561, Free PMC Article
    3. Differential expression of individual gamma-protocadherins during mouse brain development. Frank M, et al. Mol Cell Neurosci, 2005 Aug. PMID 15964765
    4. Molecular mechanisms governing Pcdh-gamma gene expression: evidence for a multiple promoter and cis-alternative splicing model. Wang X, et al. Genes Dev, 2002 Aug 1. PMID 12154121, Free PMC Article
    5. A developmental lineage-based gene co-expression network for mouse pancreatic β-cells reveals a role for Zfp800 in pancreas development. Osipovich AB, et al. Development, 2021 Mar 21. PMID 33653874, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. C-terminal cytoplasmic fragment of PcdhgC5 acts as a scaffold for CaMKP and CaMKI to regulate CaMKP activity.
      Title: Regulation of Ca(2+)/calmodulin-dependent protein kinase phosphatase (CaMKP/PPM1F) by protocadherin-γC5 (Pcdh-γC5).
    2. RNA interference knockdown of both PCDH-alphas and PCDH-gamma s showed that PCDHs have redundant functions in regulating neuronal survival in the chicken spinal cord.
      Title: Proteomics analysis reveals overlapping functions of clustered protocadherins.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within negative regulation of neuron apoptotic process IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within synapse organization IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    protocadherin gamma-C5

    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_033583.3 → NP_291061.1  protocadherin gamma-C5 precursor

      See identical proteins and their annotated locations for NP_291061.1

      Status: VALIDATED

      Source sequence(s)
      AC129315
      Consensus CDS
      CCDS29194.1
      UniProtKB/TrEMBL
      Q8K4A2, Q91XW9
      Related
      ENSMUSP00000060949.6, ENSMUST00000055935.11
      Conserved Domains (4) summary
      cd11304
      Location:459 → 560
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:30 → 111
      Cadherin_2; Cadherin-like
      pfam15974
      Location:821 → 917
      Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region
      pfam16492
      Location:689 → 791
      Cadherin_C_2; Cadherin cytoplasmic C-terminal

    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
      37952599..37974926
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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