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

Gene ID: 93708, updated on 2-Nov-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, Nov 2024]
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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See Pcdhgc5 in Genome Data Viewer
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 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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