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Pcdha12 protocadherin alpha 12 [ Mus musculus (house mouse) ]

Gene ID: 192164, updated on 27-Nov-2024

Summary

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Official Symbol
Pcdha12provided by MGI
Official Full Name
protocadherin alpha 12provided by MGI
Primary source
MGI:MGI:1298370
See related
Ensembl:ENSMUSG00000103310 AllianceGenome:MGI:1298370
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
Cnr5; Crnr5; Pcdha13
Summary
Predicted to be involved in cell adhesion. Located in membrane. Is expressed in brain. Orthologous to human PCDHA13 (protocadherin alpha 13). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in CNS E18 (RPKM 21.5), cortex adult (RPKM 13.2) and 6 other tissues See more
Orthologs
human all
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Genomic context

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See Pcdha12 in Genome Data Viewer
Location:
18 B3; 18 19.46 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (37153283..37320710)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (37020230..37187657)

Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene protocadherin alpha 1 Neighboring gene protocadherin alpha 2 Neighboring gene protocadherin alpha 4B Neighboring gene protocadherin alpha 3 Neighboring gene protocadherin alpha 4 Neighboring gene predicted gene, 38666 Neighboring gene protocadherin alpha 5 Neighboring gene predicted gene, 38667 Neighboring gene predicted gene, 36858 Neighboring gene protocadherin alpha 6 Neighboring gene protocadherin alpha 7 Neighboring gene protocadherin alpha 8 Neighboring gene protocadherin alpha 10 Neighboring gene protocadherin alpha 9 Neighboring gene predicted gene 10545 Neighboring gene protocadherin alpha 11 Neighboring gene protocadherin alpha 5 pseudogene Neighboring gene heat shock transcription factor 2 binding protein pseudogene Neighboring gene protocadherin alpha subfamily C, 1 Neighboring gene protocadherin alpha subfamily C, 2 Neighboring gene predicted gene 10544 Neighboring gene STARR-seq mESC enhancer starr_44309 Neighboring gene protocadherin beta 1 Neighboring gene protocadherin beta 2

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. Diversity revealed by a novel family of cadherins expressed in neurons at a synaptic complex. Kohmura N, et al. Neuron, 1998 Jun. PMID 9655502
  2. Proteins of the CNR family are multiple receptors for Reelin. Senzaki K, et al. Cell, 1999 Dec 10. PMID 10612399
  3. Monoallelic yet combinatorial expression of variable exons of the protocadherin-alpha gene cluster in single neurons. Esumi S, et al. Nat Genet, 2005 Feb. PMID 15640798
  4. CNR/Pcdhalpha family in subplate neurons, and developing cortical connectivity. Morishita H, et al. Neuroreport, 2004 Dec 3. PMID 15570159
  5. Alpha protocadherins and Pyk2 kinase regulate cortical neuron migration and cytoskeletal dynamics via Rac1 GTPase and WAVE complex in mice. Fan L, et al. Elife, 2018 Jun 18. PMID 29911975, Free PMC Article

See all (18) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
involved_in cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
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 alpha-12
Names
cadherin-related neuronal receptor 5
protocadherin alpha 13

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_138663.2 → NP_619604.1  protocadherin alpha-12 precursor

    See identical proteins and their annotated locations for NP_619604.1

    Status: VALIDATED

    Source sequence(s)
    AY013759
    Consensus CDS
    CCDS29166.1
    UniProtKB/TrEMBL
    O88192, Q91Y18
    Related
    ENSMUSP00000047609.2, ENSMUST00000047614.4
    Conserved Domains (4) summary
    cd11304
    Location:246 → 346
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08266
    Location:30 → 111
    Cadherin_2; Cadherin-like
    pfam15974
    Location:799 → 942
    Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region
    pfam16492
    Location:698 → 770
    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
    37153283..37320710
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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