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    Pcdhb12 protocadherin beta 12 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25133, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Pcdhb12provided by RGD
    Official Full Name
    protocadherin beta 12provided by RGD
    Primary source
    RGD:3266
    See related
    AllianceGenome:RGD:3266
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Pcdh3; Pcdhb2; Pcdhb13; Pcdhb2l; pcdh-T4
    Summary
    Predicted to enable calcium ion binding activity. Predicted to be involved in cell adhesion. Predicted to be located in cell-cell junction. Predicted to be active in plasma membrane. Orthologous to human PCDHB5 (protocadherin beta 5). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 31.5), Lung (RPKM 14.8) and 9 other tissues See more
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    Genomic context

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    See Pcdhb12 in Genome Data Viewer
    Location:
    18p11
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (29413756..29416774)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (29139746..29142764)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (30509393..30512411)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene protocadherin beta 11 Neighboring gene mitochondrial ribosomal protein L15, pseudogene 1 Neighboring gene protocadherin beta-6-like Neighboring gene protocadherin beta 14

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. [Estimation of regional circulation in rats: results obtained by using 15 and 50 micron diameter microspheres and rubidium]. Bralet J, et al. Arch Int Physiol Biochim, 1977 Feb. PMID 68759
    2. Cloning, expression, and chromosomal localization of a novel cadherin-related protein, protocadherin-3. Sago H, et al. Genomics, 1995 Oct 10. PMID 8575755
    3. Multiple cadherin superfamily members with unique expression profiles are produced in rat testis. Johnson KJ, et al. Endocrinology, 2000 Feb. PMID 10650949
    4. Multiple variable first exons: a mechanism for cell- and tissue-specific gene regulation. Zhang T, et al. Genome Res, 2004 Jan. PMID 14672974, Free PMC Article
    5. Comparative genomics and diversifying selection of the clustered vertebrate protocadherin genes. Wu Q. Genetics, 2005 Apr. PMID 15744052, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cell-cell junction IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cell-cell junction ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protocadherin-3
    Names
    Protocadherin-3, cadherin-related protein
    protocadherin 3
    protocadherin beta 13
    protocadherin beta 2
    protocadherin beta 2-like
    protocadherin beta-6
    protocadherin-T4

    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_173099.2 → NP_775122.2  protocadherin-3 precursor

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000018
      UniProtKB/Swiss-Prot
      Q63418
      UniProtKB/TrEMBL
      A6J368, F1M8K9
      Conserved Domains (3) summary
      cd11304
      Location:247 → 342
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:30 → 112
      Cadherin_2; Cadherin-like
      pfam16492
      Location:687 → 769
      Cadherin_C_2; Cadherin cytoplasmic C-terminal

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086036.1 Reference GRCr8

      Range
      29413756..29416774
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001014801.1: Suppressed sequence

      Description
      NM_001014801.1: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q63418.1 GenPept UniProtKB/Swiss-Prot:Q63418

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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