Cdh23 (cadherin related 23) - Rat Genome Database

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Pathways
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Gene: Cdh23 (cadherin related 23) Chinchilla lanigera
Analyze
Symbol: Cdh23
Name: cadherin related 23
RGD ID: 8738284
Description: INVOLVED IN adult locomotory behavior (ortholog); auditory receptor cell stereocilium organization (ortholog); calcium ion transport (ortholog); PARTICIPATES IN auditory mechanotransduction pathway; retinitis pigmentosa pathway; ASSOCIATED WITH atypical Gaucher's disease due to saposin C deficiency (ortholog); Atypical Krabbe Disease due to Saposin A Deficiency (ortholog); autosomal recessive nonsyndromic deafness (ortholog); FOUND IN apical part of cell (ortholog); centrosome (ortholog); cochlear hair cell ribbon synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cadherin-23; cadherin-related 23
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
CDH23
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381071,396,920 - 71,815,947 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 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
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82028,783,124 - 29,165,624 (-)NCBIGRCr8
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_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02028,641,839 - 29,024,097 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02029,384,303 - 29,766,584 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
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
LOC100983880
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2883,888,821 - 83,966,281 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11083,894,144 - 83,971,602 (+)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 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
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


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000021103   ⟹   ENSCLAP00000020902
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495543719,684,473 - 20,003,819 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000021104   ⟹   ENSCLAP00000020903
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495543719,684,473 - 20,003,819 (-)Ensembl
RefSeq Acc Id: XM_005390028   ⟹   XP_005390085
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495543719,683,792 - 20,044,718 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005390029   ⟹   XP_005390086
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495543719,683,792 - 20,044,718 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005390030   ⟹   XP_005390087
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495543719,683,792 - 20,044,718 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013516827   ⟹   XP_013372281
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495543719,683,792 - 20,044,718 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013516828   ⟹   XP_013372282
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495543719,683,792 - 20,044,718 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013516829   ⟹   XP_013372283
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495543719,683,792 - 20,044,718 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013516830   ⟹   XP_013372284
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495543719,687,297 - 20,044,718 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_005390086   ⟸   XM_005390029
- Peptide Label: isoform X4
- UniProtKB: A0A8C2VZ20 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005390087   ⟸   XM_005390030
- Peptide Label: isoform X6
- UniProtKB: A0A8C2W1R0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005390085   ⟸   XM_005390028
- Peptide Label: isoform X3
- UniProtKB: A0A8C2VZ20 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013372282   ⟸   XM_013516828
- Peptide Label: isoform X2
- UniProtKB: A0A8C2VZ20 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013372283   ⟸   XM_013516829
- Peptide Label: isoform X5
- UniProtKB: A0A8C2W1R0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013372281   ⟸   XM_013516827
- Peptide Label: isoform X1
- UniProtKB: A0A8C2VZ20 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013372284   ⟸   XM_013516830
- Peptide Label: isoform X7
- UniProtKB: A0A8C2W1R0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000020903   ⟸   ENSCLAT00000021104
RefSeq Acc Id: ENSCLAP00000020902   ⟸   ENSCLAT00000021103
Protein Domains
Cadherin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000014323 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000021103 ENTREZGENE
  ENSCLAT00000021103.1 UniProtKB/TrEMBL
  ENSCLAT00000021104 ENTREZGENE
  ENSCLAT00000021104.1 UniProtKB/TrEMBL
Gene3D-CATH Cadherins UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin-like_dom UniProtKB/TrEMBL
  Cadherin-like_sf UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
NCBI Gene Cdh23 ENTREZGENE
PANTHER CADHERIN-23 UniProtKB/TrEMBL
  CADHERIN-87A UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/TrEMBL
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP SSF49313 UniProtKB/TrEMBL
UniProt A0A8C2VZ20 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2W1R0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-09 Cdh23  cadherin related 23    cadherin-related 23  Symbol and/or name change 5135510 APPROVED