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Pcdh20 protocadherin 20 [ Rattus norvegicus (Norway rat) ]

Gene ID: 306081, updated on 2-Nov-2024

Summary

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Official Symbol
Pcdh20provided by RGD
Official Full Name
protocadherin 20provided by RGD
Primary source
RGD:1306297
See related
EnsemblRapid:ENSRNOG00000013306 AllianceGenome:RGD:1306297
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
Summary
Predicted to enable calcium ion binding activity. Predicted to be involved in cell adhesion. Predicted to be active in plasma membrane. Orthologous to human PCDH20 (protocadherin 20). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Brain (RPKM 103.1), Adrenal (RPKM 26.6) and 2 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Pcdh20 in Genome Data Viewer
Location:
15q12
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (70834042..70840298, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (64425534..64431790, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (71772777..71779033, complement)

Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene tubulin, alpha like, pseudogene 1 Neighboring gene pyruvate kinase M1/2, pseudogene 18 Neighboring gene mitochondrial fission regulator 2, pseudogene 1 Neighboring gene small nucleolar RNA SNORA17

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 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. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

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
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
protocadherin-20

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_001107280.1 → NP_001100750.1  protocadherin-20

    See identical proteins and their annotated locations for NP_001100750.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473951
    UniProtKB/TrEMBL
    A6HU36, D4ADD1
    Related
    ENSRNOP00000017765.4, ENSRNOT00000017765.6
    Conserved Domains (2) summary
    cd11304
    Location:541 → 636
    Cadherin_repeat; Cadherin tandem repeat domain
    cl09101
    Location:70 → 153
    E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

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_086033.1 Reference GRCr8

    Range
    70834042..70840298 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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

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