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

Gene ID: 114102, updated on 2-Nov-2024

Summary

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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, Nov 2024]
Expression
Biased expression in Heart (RPKM 29.8), Testes (RPKM 29.4) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Cdh23 in Genome Data Viewer
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_086038.1Genomic Context describing neighboring genes Neighboring gene carbohydrate sulfotransferase 3 Neighboring gene ribosomal protein L37A, pseudogene 15 Neighboring gene prosaposin Neighboring gene uncharacterized LOC134483915 Neighboring gene similar to human chromosome 10 open reading frame 105 Neighboring gene V-set immunoregulatory receptor Neighboring gene solute carrier family 29 member 3 Neighboring gene unc-5 netrin receptor B

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. Cadherin 23 is a component of the transient lateral links in the developing hair bundles of cochlear sensory cells. Michel V, et al. Dev Biol, 2005 Apr 15. PMID 15882573
  2. Vestibulocochlear defects and effects of deuterium oxide in mutant bustling (BUS) mice. Otani H, et al. Acta Otolaryngol Suppl, 1995. PMID 7610888
  3. Degenerative hairlets on the vestibular sensory cells in mutant bustling (BUS/Idr) mice. Moriyama K, et al. Acta Otolaryngol, 1997 Jan. PMID 9039475
  4. Association of cadherin 23 with polygenic inheritance and genetic modification of sensorineural hearing loss. Noben-Trauth K, et al. Nat Genet, 2003 Sep. PMID 12910270, Free PMC Article
  5. Age-related hearing loss and the ahl locus in mice. Keithley EM, et al. Hear Res, 2004 Feb. PMID 14759567, Free PMC Article

See all (40) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. 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

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Markers

Homology

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

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Preferred Names
cadherin-23
Names
Waltzing
cadherin 23 (otocadherin)
cadherin-23-like
otocadherin

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_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

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_086038.1 Reference GRCr8

    Range
    28783124..29165624 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063278917.1 → XP_063134987.1  cadherin-23 isoform X3

  2. XM_063278916.1 → XP_063134986.1  cadherin-23 isoform X2

  3. XM_063278914.1 → XP_063134984.1  cadherin-23 isoform X1

  4. XM_063278918.1 → XP_063134988.1  cadherin-23 isoform X4

  5. XM_063278915.1 → XP_063134985.1  cadherin-23 isoform X1

  6. XM_063278919.1 → XP_063134989.1  cadherin-23 isoform X5

  7. XM_063278920.1 → XP_063134990.1  cadherin-23 isoform X6

  8. XM_063278921.1 → XP_063134991.1  cadherin-23 isoform X7

  9. XM_063278923.1 → XP_063134993.1  cadherin-23 isoform X9

  10. XM_063278922.1 → XP_063134992.1  cadherin-23 isoform X8

  11. XM_063278926.1 → XP_063134996.1  cadherin-23 isoform X11

  12. XM_063278925.1 → XP_063134995.1  cadherin-23 isoform X10

  13. XM_063278927.1 → XP_063134997.1  cadherin-23 isoform X12

  14. XM_063278928.1 → XP_063134998.1  cadherin-23 isoform X13

  15. XM_039098377.2 → XP_038954305.1  cadherin-23 isoform X14

    Conserved Domains (1) summary
    cd11304
    Location:892 → 988
    Cadherin_repeat; Cadherin tandem repeat domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P58365.1 GenPept UniProtKB/Swiss-Prot:P58365

Gene LinkOut

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

Chemical Information
Molecular Biology Databases
Research Materials