Cdh23 (cadherin-related 23) - Rat Genome Database

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Gene: Cdh23 (cadherin-related 23) Rattus norvegicus
Analyze
Symbol: Cdh23
Name: cadherin-related 23
RGD ID: 619760
Description: 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 auditory receptor cell stereocilium organization; 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); PARTICIPATES IN auditory mechanotransduction pathway; retinitis pigmentosa pathway; INTERACTS WITH 3,3',4,4',5-pentachlorobiphenyl; acrylamide; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: cadherin 23 (otocadherin); cadherin related 23; cadherin-23; cadherin-23-like; LOC103694885; otocadherin; W; Waltzing
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22028,240,643 - 28,622,490 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2028,240,645 - 28,622,419 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2029,255,533 - 29,637,791 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02028,641,839 - 29,024,097 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02029,384,303 - 29,766,584 (-)NCBIRnor_WKY
Rnor_6.02029,857,018 - 30,263,758 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2029,857,637 - 29,990,111 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02031,668,747 - 32,073,985 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42027,622,049 - 28,016,145 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12027,635,850 - 28,029,945 (-)NCBI
Celera2029,678,961 - 30,059,893 (-)NCBICelera
Cytogenetic Map20q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
calcium ion binding  (IBA,IEA)
protein binding  (IPI,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Mutations in Cdh23, encoding a new type of cadherin, cause stereocilia disorganization in waltzer, the mouse model for Usher syndrome type 1D. Di Palma F, etal., Nat Genet. 2001 Jan;27(1):103-7.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Mechanotransduction by hair cells: models, molecules, and mechanisms. Gillespie PG and Muller U, Cell. 2009 Oct 2;139(1):33-44. doi: 10.1016/j.cell.2009.09.010.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Association of cadherin23 single nucleotide polymorphism with age-related hearing impairment in Han Chinese. Hwang JH, etal., Otolaryngol Head Neck Surg. 2012 Sep;147(3):531-4. doi: 10.1177/0194599812446904. Epub 2012 May 11.
6. Sensing sound: molecules that orchestrate mechanotransduction by hair cells. Kazmierczak P and Muller U, Trends Neurosci. 2012 Apr;35(4):220-9. doi: 10.1016/j.tins.2011.10.007. Epub 2011 Dec 15.
7. Cdh23 mutations in the mouse are associated with retinal dysfunction but not retinal degeneration. Libby RT, etal., Exp Eye Res. 2003 Dec;77(6):731-9.
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Cadherin 23 is a component of the transient lateral links in the developing hair bundles of cochlear sensory cells. Michel V, etal., Dev Biol 2005 Apr 15;280(2):281-94.
10. Mouse Genome Database (MGD) Mouse Genome Database (MGD)
11. Identification of three novel non-classical cadherin genes through comprehensive analysis of large cDNAs. Nakajima D, etal., Brain Res Mol Brain Res 2001 Oct 19;94(1-2):85-95.
12. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. Association of cadherin 23 with polygenic inheritance and genetic modification of sensorineural hearing loss. Noben-Trauth K, etal., Nat Genet 2003 Sep;35(1):21-3. Epub 2003 Aug 10.
14. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
15. GOA pipeline RGD automated data pipeline
16. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
17. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
18. Comprehensive gene review and curation RGD comprehensive gene curation
19. Cyclic nucleotide-gated channel alpha-3 (CNGA3) interacts with stereocilia tip-link cadherin 23 + exon 68 or alternatively with myosin VIIa, two proteins required for hair cell mechanotransduction. Selvakumar D, etal., J Biol Chem. 2013 Mar 8;288(10):7215-29. doi: 10.1074/jbc.M112.443226. Epub 2013 Jan 17.
20. Distribution and frequencies of CDH23 mutations in Japanese patients with non-syndromic hearing loss. Wagatsuma M, etal., Clin Genet. 2007 Oct;72(4):339-44.
21. Photoreceptor degeneration: genetic and mechanistic dissection of a complex trait. Wright AF, etal., Nat Rev Genet. 2010 Apr;11(4):273-84. doi: 10.1038/nrg2717.
22. [Association of cadherin CDH23 gene polymorphisms with noise induced hearing loss in Chinese workers]. Yang M, etal., Wei Sheng Yan Jiu. 2006 Jan;35(1):19-22.
Additional References at PubMed
PMID:7610888   PMID:8790740   PMID:9039475   PMID:9325047   PMID:9447922   PMID:10452381   PMID:11322776   PMID:11386759   PMID:12121736   PMID:12485990   PMID:13336002   PMID:14578428  
PMID:14759567   PMID:15537665   PMID:15820310   PMID:15882574   PMID:15925194   PMID:16481439   PMID:16679490   PMID:16962269   PMID:17050716   PMID:17234811   PMID:17329413   PMID:18339676  
PMID:19756182   PMID:23217710   PMID:24920589  


Genomics

Comparative Map Data
Cdh23
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22028,240,643 - 28,622,490 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2028,240,645 - 28,622,419 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2029,255,533 - 29,637,791 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02028,641,839 - 29,024,097 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02029,384,303 - 29,766,584 (-)NCBIRnor_WKY
Rnor_6.02029,857,018 - 30,263,758 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2029,857,637 - 29,990,111 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02031,668,747 - 32,073,985 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42027,622,049 - 28,016,145 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12027,635,850 - 28,029,945 (-)NCBI
Celera2029,678,961 - 30,059,893 (-)NCBICelera
Cytogenetic Map20q11NCBI
CDH23
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381071,396,920 - 71,815,947 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1071,396,920 - 71,815,947 (+)EnsemblGRCh38hg38GRCh38
GRCh371073,156,677 - 73,575,704 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361072,826,697 - 73,245,710 (+)NCBINCBI36Build 36hg18NCBI36
Build 341072,826,696 - 73,076,543NCBI
Celera1066,439,492 - 66,858,274 (+)NCBICelera
Cytogenetic Map10q22.1NCBI
HuRef1067,150,783 - 67,156,961 (+)NCBIHuRef
CHM1_11073,439,263 - 73,857,682 (+)NCBICHM1_1
T2T-CHM13v2.01072,266,464 - 72,686,680 (+)NCBIT2T-CHM13v2.0
Cdh23
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391060,138,527 - 60,532,291 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1060,138,527 - 60,532,269 (-)EnsemblGRCm39 Ensembl
GRCm381060,302,748 - 60,696,513 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1060,302,748 - 60,696,490 (-)EnsemblGRCm38mm10GRCm38
MGSCv371059,766,022 - 60,159,238 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361059,698,731 - 60,052,690 (-)NCBIMGSCv36mm8
Celera1061,400,142 - 61,796,629 (-)NCBICelera
Cytogenetic Map10B4NCBI
cM Map1030.11NCBI
Cdh23
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543719,684,473 - 20,003,819 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543719,683,792 - 20,044,718 (-)NCBIChiLan1.0ChiLan1.0
LOC100983880
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan11083,894,144 - 83,971,645 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01067,866,979 - 68,286,008 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11070,391,661 - 70,810,240 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1070,434,801 - 70,810,240 (+)Ensemblpanpan1.1panPan2
CDH23
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1422,206,972 - 22,570,875 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl422,207,001 - 22,571,131 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha422,343,327 - 22,708,459 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0422,485,192 - 22,847,328 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl422,438,303 - 22,847,265 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1422,382,421 - 22,753,409 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0422,588,293 - 22,952,028 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0422,941,027 - 23,306,533 (+)NCBIUU_Cfam_GSD_1.0
LOC101969963
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721358,586,064 - 58,899,858 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365217,010,360 - 7,340,842 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365217,078,874 - 7,285,361 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDH23
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1474,223,089 - 74,733,834 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11474,267,547 - 74,734,623 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21480,226,063 - 80,626,249 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103216037
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1959,475,126 - 59,893,824 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604820,118,874 - 20,208,512 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdh23
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247545,393,733 - 5,724,876 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247545,356,006 - 5,725,774 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cdh23
1550 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:140
Count of miRNA genes:116
Interacting mature miRNAs:123
Transcripts:ENSRNOT00000048029
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201761783247606836Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201769755054435887Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)201919072154435887Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202510672254435887Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202510672254435887Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202510672254435887Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202520973454435887Rat

Markers in Region
D20Got108  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22028,540,995 - 28,541,219 (+)MAPPERmRatBN7.2
Rnor_6.02030,181,841 - 30,182,064NCBIRnor6.0
Rnor_5.02031,992,210 - 31,992,433UniSTSRnor5.0
RGSC_v3.42027,934,411 - 27,934,634UniSTSRGSC3.4
Celera2029,978,381 - 29,978,604UniSTS
Cytogenetic Map20q11UniSTS
RH128021  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22028,240,158 - 28,240,358 (+)MAPPERmRatBN7.2
Rnor_6.02029,856,534 - 29,856,733NCBIRnor6.0
Rnor_5.02031,668,263 - 31,668,462UniSTSRnor5.0
RGSC_v3.42027,621,565 - 27,621,764UniSTSRGSC3.4
Celera2029,678,477 - 29,678,676UniSTS
RH 3.4 Map21521.6UniSTS
Cytogenetic Map20q11UniSTS
RH131718  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22028,303,636 - 28,303,837 (+)MAPPERmRatBN7.2
Rnor_6.02029,919,756 - 29,919,956NCBIRnor6.0
Rnor_5.02031,731,221 - 31,731,421UniSTSRnor5.0
RGSC_v3.42027,684,647 - 27,684,847UniSTSRGSC3.4
Celera2029,741,790 - 29,741,990UniSTS
Cytogenetic Map20q11UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 6
Low 2 43 17 2 19 2 8 10 72 24 35 11 8
Below cutoff 1 28 27 27 1 2 11

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098366 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098367 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098369 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098377 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB053447 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000048029   ⟹   ENSRNOP00000048338
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2028,241,262 - 28,622,419 (-)Ensembl
Rnor_6.0 Ensembl2029,857,637 - 29,990,111 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100038   ⟹   ENSRNOP00000086738
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2028,240,645 - 28,622,419 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000118579   ⟹   ENSRNOP00000096099
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2028,240,645 - 28,622,419 (-)Ensembl
RefSeq Acc Id: NM_053644   ⟹   NP_446096
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,240,643 - 28,622,419 (-)NCBI
Rnor_6.02029,857,018 - 30,263,758 (-)NCBI
Rnor_5.02031,668,747 - 32,073,985 (-)NCBI
RGSC_v3.42027,622,049 - 28,016,145 (-)RGD
Celera2029,678,961 - 30,059,893 (-)RGD
Sequence:
RefSeq Acc Id: XM_039098361   ⟹   XP_038954289
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,240,643 - 28,622,483 (-)NCBI
RefSeq Acc Id: XM_039098362   ⟹   XP_038954290
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,240,643 - 28,622,484 (-)NCBI
RefSeq Acc Id: XM_039098363   ⟹   XP_038954291
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,240,643 - 28,622,485 (-)NCBI
RefSeq Acc Id: XM_039098364   ⟹   XP_038954292
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,241,452 - 28,622,485 (-)NCBI
RefSeq Acc Id: XM_039098366   ⟹   XP_038954294
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,244,883 - 28,622,488 (-)NCBI
RefSeq Acc Id: XM_039098367   ⟹   XP_038954295
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,240,643 - 28,447,919 (-)NCBI
RefSeq Acc Id: XM_039098368   ⟹   XP_038954296
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,245,323 - 28,622,490 (-)NCBI
RefSeq Acc Id: XM_039098369   ⟹   XP_038954297
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,248,051 - 28,622,490 (-)NCBI
RefSeq Acc Id: XM_039098370   ⟹   XP_038954298
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,262,585 - 28,622,490 (-)NCBI
RefSeq Acc Id: XM_039098371   ⟹   XP_038954299
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,262,585 - 28,622,490 (-)NCBI
RefSeq Acc Id: XM_039098372   ⟹   XP_038954300
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,240,643 - 28,320,953 (-)NCBI
RefSeq Acc Id: XM_039098373   ⟹   XP_038954301
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,307,565 - 28,622,489 (-)NCBI
RefSeq Acc Id: XM_039098374   ⟹   XP_038954302
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,303,207 - 28,622,488 (-)NCBI
RefSeq Acc Id: XM_039098375   ⟹   XP_038954303
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,307,565 - 28,622,488 (-)NCBI
RefSeq Acc Id: XM_039098376   ⟹   XP_038954304
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,313,247 - 28,622,488 (-)NCBI
RefSeq Acc Id: XM_039098377   ⟹   XP_038954305
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22028,335,235 - 28,622,488 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_446096   ⟸   NM_053644
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000048338   ⟸   ENSRNOT00000048029
RefSeq Acc Id: XP_038954291   ⟸   XM_039098363
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954290   ⟸   XM_039098362
- Peptide Label: isoform X1
- UniProtKB: F1LPE5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038954289   ⟸   XM_039098361
- Peptide Label: isoform X1
- UniProtKB: F1LPE5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038954295   ⟸   XM_039098367
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038954300   ⟸   XM_039098372
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038954292   ⟸   XM_039098364
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038954294   ⟸   XM_039098366
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038954296   ⟸   XM_039098368
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038954297   ⟸   XM_039098369
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038954299   ⟸   XM_039098371
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038954298   ⟸   XM_039098370
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038954302   ⟸   XM_039098374
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038954301   ⟸   XM_039098373
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038954303   ⟸   XM_039098375
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038954304   ⟸   XM_039098376
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038954305   ⟸   XM_039098377
- Peptide Label: isoform X15
RefSeq Acc Id: ENSRNOP00000096099   ⟸   ENSRNOT00000118579
RefSeq Acc Id: ENSRNOP00000086738   ⟸   ENSRNOT00000100038
Protein Domains
Cadherin

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619760 AgrOrtholog
BioCyc Gene G2FUF-3742 BioCyc
Ensembl Genes ENSRNOG00000033087 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000048338 ENTREZGENE
  ENSRNOP00000048338.5 UniProtKB/TrEMBL
  ENSRNOP00000086738.1 UniProtKB/TrEMBL
  ENSRNOP00000096099 ENTREZGENE
  ENSRNOP00000096099.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000048029 ENTREZGENE
  ENSRNOT00000048029.5 UniProtKB/TrEMBL
  ENSRNOT00000100038.1 UniProtKB/TrEMBL
  ENSRNOT00000118579 ENTREZGENE
  ENSRNOT00000118579.1 UniProtKB/TrEMBL
Gene3D-CATH Cadherins UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Cadherin-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cadherin-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:114102 UniProtKB/Swiss-Prot
NCBI Gene 114102 ENTREZGENE
PANTHER CADHERIN-RELATED TUMOR SUPPRESSOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FAT ATYPICAL CADHERIN-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cdh23 PhenoGen
PRINTS CADHERIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49313 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A2T2_RAT UniProtKB/TrEMBL
  A0A8I6AP55_RAT UniProtKB/TrEMBL
  CAD23_RAT UniProtKB/Swiss-Prot
  F1LPE5 ENTREZGENE, UniProtKB/TrEMBL
  P58365 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Cdh23  cadherin-related 23  LOC103694885  cadherin-23-like  Data Merged 737654 PROVISIONAL
2014-08-25 LOC103694885  cadherin-23-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2012-01-06 Cdh23  cadherin-related 23  Cdh23  cadherin 23 (otocadherin)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Cdh23  cadherin 23 (otocadherin)    cadherin related 23  Name updated 1299863 APPROVED
2002-08-07 Cdh23  cadherin related 23      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression enriched in testis 633048