Cdh23 cadherin-related 23 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Cdh23provided by RGD
Full Name: cadherin-related 23provided by RGD
Primary source: RGD:619760
See related: EnsemblRapid:ENSRNOG00000033087 AllianceGenome:RGD:619760
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
Summary: Predicted to enable calcium ion binding activity. Predicted to be involved in several processes, including equilibrioception; photoreceptor cell maintenance; and regulation of cytosolic calcium ion concentration. Predicted to act upstream of or within several processes, including inner ear development; righting reflex; and sensory perception of sound. Located in apical part of cell. Human ortholog(s) of this gene implicated in Usher syndrome type 1D; autosomal recessive nonsyndromic deafness; autosomal recessive nonsyndromic deafness 12; and pituitary adenoma 5. Orthologous to human CDH23 (cadherin related 23). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Heart (RPKM 29.8), Testes (RPKM 29.4) and 8 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 20q11

Exon count:: 74

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (28783124..29165624, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (28240643..28622490, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (29857018..30263758, complement)

Chromosome 20 - NC_086038.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Data indicate that CNGA3 interacts with cadherin 23 and with cadherin 23 binding partner, myosin VIIa.
Title: Cyclic nucleotide-gated channel α-3 (CNGA3) interacts with stereocilia tip-link cadherin 23 + exon 68 or alternatively with myosin VIIa, two proteins required for hair cell mechanotransduction.
Cadherin 23 is a component of the transient lateral links in the developing hair bundles of cochlear sensory cells
Title: Cadherin 23 is a component of the transient lateral links in the developing hair bundles of cochlear sensory cells.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

RH128021 (e-PCR)
- UniSTS:211330

Cdh23 (e-PCR), detects polymorphism
- UniSTS:256658

Cdh23 (e-PCR), detects polymorphism
- UniSTS:256659

Cdh23 (e-PCR), detects polymorphism
- UniSTS:256660

Cdh23 (e-PCR), detects polymorphism
- UniSTS:256661

RH131718 (e-PCR)
- UniSTS:215001

AU027620 (e-PCR)
- UniSTS:113126

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within adult locomotory behavior	ISO Inferred from Sequence Orthology more info
involved_in auditory receptor cell stereocilium organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within auditory receptor cell stereocilium organization	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in calcium ion transport	IEA Inferred from Electronic Annotation more info
involved_in calcium ion transport	ISO Inferred from Sequence Orthology more info
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cochlea development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cochlea development	ISO Inferred from Sequence Orthology more info
involved_in equilibrioception	IEA Inferred from Electronic Annotation more info
involved_in equilibrioception	ISO Inferred from Sequence Orthology more info
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within inner ear auditory receptor cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear receptor cell stereocilium organization	ISO Inferred from Sequence Orthology more info
involved_in locomotory behavior	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within locomotory behavior	ISO Inferred from Sequence Orthology more info
involved_in photoreceptor cell maintenance	IEA Inferred from Electronic Annotation more info
involved_in photoreceptor cell maintenance	ISO Inferred from Sequence Orthology more info
involved_in regulation of cytosolic calcium ion concentration	IEA Inferred from Electronic Annotation more info
involved_in regulation of cytosolic calcium ion concentration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within righting reflex	ISO Inferred from Sequence Orthology more info
involved_in sensory perception of light stimulus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within sensory perception of light stimulus	ISO Inferred from Sequence Orthology more info
involved_in sensory perception of light stimulus	ISO Inferred from Sequence Orthology more info
involved_in sensory perception of sound	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within sensory perception of sound	ISO Inferred from Sequence Orthology more info
involved_in sensory perception of sound	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in apical part of cell	IDA Inferred from Direct Assay more info	PubMed
is_active_in cell-cell junction	IBA Inferred from Biological aspect of Ancestor more info
located_in centrosome	IEA Inferred from Electronic Annotation more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in cochlear hair cell ribbon synapse	IEA Inferred from Electronic Annotation more info
is_active_in cochlear hair cell ribbon synapse	ISO Inferred from Sequence Orthology more info
located_in kinocilium	IEA Inferred from Electronic Annotation more info
located_in kinocilium	ISO Inferred from Sequence Orthology more info
located_in photoreceptor inner segment	IEA Inferred from Electronic Annotation more info
located_in photoreceptor inner segment	ISO Inferred from Sequence Orthology more info
located_in photoreceptor ribbon synapse	IEA Inferred from Electronic Annotation more info
is_active_in photoreceptor ribbon synapse	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in stereocilium	ISO Inferred from Sequence Orthology more info
located_in stereocilium tip	IEA Inferred from Electronic Annotation more info
located_in stereocilium tip	ISO Inferred from Sequence Orthology more info
is_active_in synapse	ISO Inferred from Sequence Orthology more info
located_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: cadherin-23

Names: Waltzing; cadherin 23 (otocadherin); cadherin-23-like; otocadherin

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_053644.2 → NP_446096.2 cadherin-23 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000020

UniProtKB/Swiss-Prot

P58365

Related

ENSRNOP00000096099.1, ENSRNOT00000118579.2

Conserved Domains (1) summary

cd11304
Location:1531 → 1628

Cadherin_repeat; Cadherin tandem repeat domain