Cdh20 (cadherin 20) - Rat Genome Database

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Gene: Cdh20 (cadherin 20) Ictidomys tridecemlineatus
Analyze
Symbol: Cdh20
Name: cadherin 20
RGD ID: 12690936
Description: ENCODES a protein that exhibits cadherin binding (inferred); calcium ion binding (inferred); INVOLVED IN adherens junction organization (inferred); calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules (inferred); cell adhesion (inferred); ASSOCIATED WITH chromosome 18q deletion syndrome (ortholog); genetic disease (ortholog); syndactyly (ortholog); FOUND IN adherens junction (inferred); catenin complex (inferred); plasma membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cadherin-20
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494428,387,140 - 28,587,898 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364973,625,601 - 3,699,564 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364973,626,181 - 3,827,024 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Cdh20
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494428,387,140 - 28,587,898 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364973,625,601 - 3,699,564 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364973,626,181 - 3,827,024 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDH20
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381861,333,430 - 61,555,779 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1861,333,430 - 61,555,779 (+)EnsemblGRCh38hg38GRCh38
GRCh371859,000,663 - 59,223,012 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361857,308,755 - 57,373,345 (+)NCBINCBI36Build 36hg18NCBI36
Build 341857,308,754 - 57,373,345NCBI
Celera1855,875,642 - 55,940,232 (+)NCBICelera
Cytogenetic Map18q21.33NCBI
HuRef1855,867,814 - 55,931,773 (+)NCBIHuRef
CHM1_11859,153,227 - 59,217,972 (+)NCBICHM1_1
T2T-CHM13v2.01861,536,681 - 61,759,001 (+)NCBIT2T-CHM13v2.0
Cdh20
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391104,696,245 - 104,923,202 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1104,696,254 - 104,923,206 (+)EnsemblGRCm39 Ensembl
GRCm381104,768,340 - 104,995,481 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1104,768,529 - 104,995,481 (+)EnsemblGRCm38mm10GRCm38
MGSCv371106,665,396 - 106,892,058 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361106,596,366 - 106,823,028 (+)NCBIMGSCv36mm8
Celera1107,630,046 - 107,857,575 (+)NCBICelera
Cytogenetic Map1E2.1NCBI
cM Map149.42NCBI
Cdh20
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81321,252,272 - 21,583,526 (+)NCBIGRCr8
mRatBN7.21320,737,640 - 21,069,746 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1320,738,081 - 21,068,676 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1321,347,754 - 21,410,721 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01322,632,507 - 22,695,474 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01321,316,387 - 21,379,354 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01324,630,298 - 24,914,463 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1324,823,488 - 24,913,884 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01330,018,338 - 30,085,298 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41310,970,187 - 11,038,947 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11310,970,186 - 11,038,946 (+)NCBI
Celera1320,896,704 - 20,961,175 (+)NCBICelera
Cytogenetic Map13p11NCBI
Cdh20
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540245,340,223 - 45,543,256 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540245,340,824 - 45,543,088 (+)NCBIChiLan1.0ChiLan1.0
CDH20
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21778,858,063 - 79,080,155 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11864,550,654 - 64,772,871 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01854,706,558 - 54,928,744 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11858,028,849 - 58,250,790 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1858,028,533 - 58,250,790 (+)Ensemblpanpan1.1panPan2
CDH20
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1115,172,681 - 15,388,327 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl115,183,350 - 15,234,880 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha116,150,908 - 16,202,432 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0115,054,279 - 15,259,002 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl115,054,288 - 15,106,347 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1115,079,685 - 15,131,164 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0115,014,314 - 15,066,051 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0115,260,942 - 15,312,507 (-)NCBIUU_Cfam_GSD_1.0
CDH20
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1159,817,159 - 159,917,145 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11159,817,091 - 160,024,985 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21177,316,697 - 177,367,332 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CDH20
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11818,207,407 - 18,426,620 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1818,207,415 - 18,269,551 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660607,259,763 - 7,481,337 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdh20
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247926,902,931 - 7,159,514 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247926,903,439 - 7,158,708 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000020877   ⟹   ENSSTOP00000016853
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049364973,625,601 - 3,699,564 (-)Ensembl
RefSeq Acc Id: XM_005323017   ⟹   XP_005323074
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494428,387,140 - 28,587,898 (-)NCBI
SpeTri2.0NW_0049364973,626,181 - 3,827,024 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040272403   ⟹   XP_040128337
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494428,387,140 - 28,587,516 (-)NCBI
RefSeq Acc Id: XM_040272407   ⟹   XP_040128341
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494428,387,140 - 28,587,511 (-)NCBI
Protein Sequences
Protein RefSeqs XP_005323074 (Get FASTA)   NCBI Sequence Viewer  
  XP_040128337 (Get FASTA)   NCBI Sequence Viewer  
  XP_040128341 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000016853.2
GenBank Protein KAG3293797 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005323074   ⟸   XM_005323017
- Peptide Label: isoform X1
- UniProtKB: I3MXK8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040128337   ⟸   XM_040272403
- Peptide Label: isoform X2
RefSeq Acc Id: XP_040128341   ⟸   XM_040272407
- Peptide Label: isoform X3
RefSeq Acc Id: ENSSTOP00000016853   ⟸   ENSSTOT00000020877
Protein Domains
Cadherin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000024289 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000020877.2 UniProtKB/TrEMBL
Gene3D-CATH 4.10.900.10 UniProtKB/TrEMBL
  Cadherins UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin-like_dom UniProtKB/TrEMBL
  Cadherin-like_sf UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  Cadherin_cytoplasmic-dom UniProtKB/TrEMBL
  Catenin-bd_sf UniProtKB/TrEMBL
NCBI Gene Cdh20 ENTREZGENE
PANTHER CADHERIN-20 UniProtKB/TrEMBL
  PTHR24027 UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
  Cadherin_C 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 I3MXK8 ENTREZGENE, UniProtKB/TrEMBL