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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

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