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    Pcdha3 protocadherin alpha 3 [ Mus musculus (house mouse) ]

    Gene ID: 192163, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Pcdha3provided by MGI
    Official Full Name
    protocadherin alpha 3provided by MGI
    Primary source
    MGI:MGI:2447313
    See related
    Ensembl:ENSMUSG00000102312 AllianceGenome:MGI:2447313
    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
    mKIAA0345
    Summary
    Predicted to be involved in cell adhesion. Located in membrane. Is expressed in brain. Orthologous to human PCDHA3 (protocadherin alpha 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in CNS E18 (RPKM 21.7), cortex adult (RPKM 12.7) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Pcdha3 in Genome Data Viewer
    Location:
    18 B2- 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 (37079141..37320716)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (36946088..37187663)

    Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer mm9_chr18:36962302-36962603 Neighboring gene STARR-positive B cell enhancer ABC_E1207 Neighboring gene STARR-seq mESC enhancer starr_44299 Neighboring gene STARR-seq mESC enhancer starr_44300 Neighboring gene vault RNA component 5 Neighboring gene STARR-seq mESC enhancer starr_44301 Neighboring gene STARR-seq mESC enhancer starr_44302 Neighboring gene STARR-seq mESC enhancer starr_44303 Neighboring gene STARR-seq mESC enhancer starr_44304 Neighboring gene STARR-seq mESC enhancer starr_44305 Neighboring gene 3-phosphoglycerate dehydrogenase pseudogene Neighboring gene protocadherin alpha 1 Neighboring gene protocadherin alpha 2 Neighboring gene protocadherin alpha 4B Neighboring gene predicted gene, 38666 Neighboring gene protocadherin alpha 4 Neighboring gene predicted gene, 38667 Neighboring gene predicted gene, 36858 Neighboring gene protocadherin alpha 5 Neighboring gene protocadherin alpha 6 Neighboring gene protocadherin alpha 7 Neighboring gene protocadherin alpha 10 Neighboring gene protocadherin alpha 8 Neighboring gene predicted gene 10545 Neighboring gene protocadherin alpha 11 Neighboring gene protocadherin alpha 9 Neighboring gene protocadherin alpha 5 pseudogene Neighboring gene protocadherin alpha 12 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. 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
    2. 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
    3. CNR/Pcdhalpha family in subplate neurons, and developing cortical connectivity. Morishita H, et al. Neuroreport, 2004 Dec 3. PMID 15570159
    4. Developmental epigenetic modification regulates stochastic expression of clustered protocadherin genes, generating single neuron diversity. Toyoda S, et al. Neuron, 2014 Apr 2. PMID 24698270
    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 (14) 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 (1) 

    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 cell adhesion TAS
    Traceable Author Statement
    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 alpha-3

    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_138662.2 → NP_619603.1  protocadherin alpha-3 precursor

      See identical proteins and their annotated locations for NP_619603.1

      Status: VALIDATED

      Source sequence(s)
      AC020968, AC020972, AC020973
      Consensus CDS
      CCDS79615.1
      UniProtKB/TrEMBL
      Q6ZQD4, Q91Y16
      Related
      ENSMUSP00000141989.2, ENSMUST00000192503.2
      Conserved Domains (3) summary
      cd11304
      Location:244 → 343
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:27 → 108
      Cadherin_2; Cadherin-like
      pfam15974
      Location:791 → 934
      Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region

    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
      37079141..37320716
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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    Chemical Information
    Molecular Biology Databases
    Research Materials