Cdh20 cadherin 20 [Rattus norvegicus (Norway rat)] - Gene

Summary

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, Dec 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

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_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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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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)

NM_001012748.2 → NP_001012766.2 cadherin-20 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/Swiss-Prot

Q5DWV1

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

NC_086031.1 Reference GRCr8

Range

21252272..21583526

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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