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Cdh20 cadherin 20 [ Rattus norvegicus (Norway rat) ]

Gene ID: 363948, updated on 27-Nov-2024

Summary

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Official Symbol
Cdh20provided by RGD
Official Full Name
cadherin 20provided by RGD
Primary source
RGD:1305438
See related
EnsemblRapid:ENSRNOG00000014556 AllianceGenome:RGD:1305438
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Cad20
Summary
Predicted to enable beta-catenin binding activity and cadherin binding activity. Predicted to be involved in several processes, including calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules; cell-cell adhesion mediated by cadherin; and cell-cell junction organization. Predicted to be located in plasma membrane. Predicted to be part of catenin complex. Predicted to be active in adherens junction. Orthologous to human CDH20 (cadherin 20). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Brain (RPKM 45.0), Heart (RPKM 25.6) and 2 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Cdh20 in Genome Data Viewer
Location:
13p11
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (21252272..21583526)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (20737640..21069746)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (24630298..24914463)

Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene protein phosphatase 1, regulatory (inhibitor) subunit 14B like 1 Neighboring gene high mobility group box 3, pseudogene 2 Neighboring gene uncharacterized LOC102547165 Neighboring gene uncharacterized LOC134481471 Neighboring gene ring finger protein 152

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. The distribution of Cdh20 mRNA demarcates somatotopic subregions and subpopulations of spiny projection neurons in the rat dorsolateral striatum. Takahashi M, et al. J Comp Neurol, 2021 Nov. PMID 34240415
  2. Expression study of cadherin7 and cadherin20 in the embryonic and adult rat central nervous system. Takahashi M, et al. BMC Dev Biol, 2008 Sep 19. PMID 18801203, Free PMC Article
  3. 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

What's a GeneRIF?
  1. The distribution of Cdh20 mRNA demarcates somatotopic subregions and subpopulations of spiny projection neurons in the rat dorsolateral striatum.
    Title: The distribution of Cdh20 mRNA demarcates somatotopic subregions and subpopulations of spiny projection neurons in the rat dorsolateral striatum.
  2. Expression of cad7 and cad20 demarcates the compartments, boundaries, progenitor domains, specific nuclei and specific neural circuits during mammalian brain development.
    Title: Expression study of cadherin7 and cadherin20 in the embryonic and adult rat central nervous system.
Submit: New GeneRIF Correction

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables beta-catenin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables cadherin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in adherens junction organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell-cell adhesion mediated by cadherin IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell-cell junction assembly 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 adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of catenin complex 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
cadherin-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_001012748.2 → NP_001012766.2  cadherin-20 precursor

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000013
    UniProtKB/TrEMBL
    A6JST1, G3V7W5
    Related
    ENSRNOP00000019907.2, ENSRNOT00000019907.6

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_086031.1 Reference GRCr8

    Range
    21252272..21583526
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017598871.3 → XP_017454360.1  cadherin-20 isoform X1

    Conserved Domains (3) summary
    cd11304
    Location:394 → 490
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:85 → 163
    CA; Cadherin repeats
    pfam01049
    Location:651 → 792
    Cadherin_C; Cadherin cytoplasmic region

  2. XM_017598872.3 → XP_017454361.1  cadherin-20 isoform X1

    UniProtKB/Swiss-Prot
    Q5DWV1
    UniProtKB/TrEMBL
    A6JST1, G3V7W5
    Conserved Domains (3) summary
    cd11304
    Location:394 → 490
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:85 → 163
    CA; Cadherin repeats
    pfam01049
    Location:651 → 792
    Cadherin_C; Cadherin cytoplasmic region
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5DWV1.1 GenPept UniProtKB/Swiss-Prot:Q5DWV1

Gene LinkOut

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

Chemical Information
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