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Pcdhga12 protocadherin gamma subfamily A, 12 [ Mus musculus (house mouse) ]

Gene ID: 93724, updated on 2-Nov-2024

Summary

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Official Symbol
Pcdhga12provided by MGI
Official Full Name
protocadherin gamma subfamily A, 12provided by MGI
Primary source
MGI:MGI:1935229
See related
Ensembl:ENSMUSG00000102428 AllianceGenome:MGI:1935229
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
Also known as
pc2c; Pcdh13
Summary
Predicted to be involved in cell adhesion. Predicted to act upstream of or within calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules. Located in cell-cell junction and membrane. Is expressed in several structures, including brain; facial prominence; sensory organ; skeleton; and tooth. Orthologous to human PCDHGA12 (protocadherin gamma subfamily A, 12). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in frontal lobe adult (RPKM 45.2), whole brain E14.5 (RPKM 41.5) and 24 other tissues See more
Orthologs
human all
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Genomic context

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See Pcdhga12 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 (37898633..37974926)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (37765580..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 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 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 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. Molecular heterogeneity in the choroid plexus epithelium: the 22-member γ-protocadherin family is differentially expressed, apically localized, and implicated in CSF regulation. Lobas MA, et al. J Neurochem, 2012 Mar. PMID 22092001, Free PMC Article
  2. Protocadherin 2C: a new member of the protocadherin 2 subfamily expressed in a redundant manner with OL-protocadherin in the developing brain. Hirano S, et al. Biochem Biophys Res Commun, 1999 Jul 14. PMID 10403819
  3. Dynamic expression patterns of the new protocadherin families CNRs and Pcdh-gamma during mouse odontogenesis: comparison with reelin expression. Heymann R, et al. Mech Dev, 2001 Aug. PMID 11472853
  4. Differential expression of individual gamma-protocadherins during mouse brain development. Frank M, et al. Mol Cell Neurosci, 2005 Aug. PMID 15964765
  5. Frequent long-range epigenetic silencing of protocadherin gene clusters on chromosome 5q31 in Wilms' tumor. Dallosso AR, et al. PLoS Genet, 2009 Nov. PMID 19956686, Free PMC Article

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. This study suggested an unsuspected role for the gamma-Pcdhs in CSF production and demonstrate a surprising molecular heterogeneity in the CP epithelium.
    Title: Molecular heterogeneity in the choroid plexus epithelium: the 22-member γ-protocadherin family is differentially expressed, apically localized, and implicated in CSF regulation.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cell-cell junction IDA
Inferred from Direct Assay
more info
 PubMed 
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
  
located_in plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 

General protein information

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Preferred Names
protocadherin gamma-A12
Names
protocadherin 13
protocadherin gamma A12
protocadherin gamma B6

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_033595.4 → NP_291073.1  protocadherin gamma-A12

    See identical proteins and their annotated locations for NP_291073.1

    Status: VALIDATED

    Source sequence(s)
    AC020971, AC129315
    Consensus CDS
    CCDS29191.1
    UniProtKB/TrEMBL
    Q91XY7, Q9Z1B0
    Related
    ENSMUSP00000036359.6, ENSMUST00000044851.8
    Conserved Domains (4) summary
    cd11304
    Location:246 → 343
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08266
    Location:30 → 112
    Cadherin_2; Cadherin-like
    pfam15974
    Location:809 → 905
    Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region
    pfam16492
    Location:689 → 772
    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
    37898633..37974926
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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