CDH6 (cadherin 6) - Rat Genome Database

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Gene: CDH6 (cadherin 6) Canis lupus familiaris
Analyze
Symbol: CDH6
Name: cadherin 6
RGD ID: 12349712
Description: ENCODES a protein that exhibits beta-catenin binding (inferred); cadherin binding (inferred); calcium ion binding (inferred); INVOLVED IN female gonad development (ortholog); Notch signaling pathway (ortholog); ASSOCIATED WITH Cachexia (ortholog); clear cell renal cell carcinoma (ortholog); Familial Pancreatic Carcinoma (ortholog); FOUND IN adherens junction (inferred); catenin complex (inferred); cell junction (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cadherin 6, type 2, K-cadherin (fetal kidney); cadherin-6; LOC479376
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1475,950,999 - 75,999,250 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl475,950,999 - 75,961,779 (-)EnsemblCanFam3.1 EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha475,581,781 - 75,637,173 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0476,509,374 - 76,565,038 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl476,514,925 - 76,565,306 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1476,203,034 - 76,258,370 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0476,332,328 - 76,387,656 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0476,860,858 - 76,916,322 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:21508319   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CDH6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1475,950,999 - 75,999,250 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl475,950,999 - 75,961,779 (-)EnsemblCanFam3.1 EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha475,581,781 - 75,637,173 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0476,509,374 - 76,565,038 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl476,514,925 - 76,565,306 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1476,203,034 - 76,258,370 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0476,332,328 - 76,387,656 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0476,860,858 - 76,916,322 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
CDH6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38531,193,686 - 31,329,146 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl531,193,679 - 31,329,146 (+)EnsemblGRCh38.p14 Ensemblhg38GRCh38
GRCh37531,193,793 - 31,329,253 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36531,229,553 - 31,360,994 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34531,229,552 - 31,360,994NCBI
Celera531,074,550 - 31,205,743 (+)NCBICelera
Cytogenetic Map5p13.3NCBI
HuRef531,162,140 - 31,297,610 (+)NCBIHuRef
CHM1_1531,194,916 - 31,330,813 (+)NCBICHM1_1
T2T-CHM13v2.0531,307,253 - 31,442,732 (+)NCBIT2T-CHM13v2.0
Cdh6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391513,028,785 - 13,176,493 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1513,028,787 - 13,174,004 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381513,028,699 - 13,176,407 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1513,028,701 - 13,173,675 (-)EnsemblGRCm38.p6 Ensemblmm10GRCm38
MGSCv371512,963,955 - 13,103,394 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361512,978,925 - 13,036,602 (-)NCBIMGSCv36mm8
Celera1512,808,206 - 12,945,380 (-)NCBICelera
Cytogenetic Map15A1NCBI
cM Map156.11NCBI
Cdh6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8263,801,630 - 63,952,309 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl263,806,135 - 63,952,287 (-)EnsemblGRCr8
mRatBN7.2262,079,139 - 62,225,298 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl262,079,137 - 62,225,228 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx269,209,415 - 69,355,815 (-)NCBIUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0267,332,120 - 67,478,319 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0262,333,575 - 62,479,976 (-)NCBIUTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd264,029,097 - 64,175,134 (-)NCBI
Lyon_Normotensive264,084,280 - 64,230,335 (-)NCBI
Lyon_Hypertensive263,936,060 - 64,082,074 (-)NCBI
F344_StmMcwi263,755,271 - 63,901,313 (-)NCBI
Rnor_6.0263,100,723 - 63,246,618 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl263,101,739 - 63,166,509 (-)EnsemblRnor_6.0 Ensemblrn6Rnor6.0
Rnor_5.0281,448,794 - 81,594,432 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4262,547,961 - 62,703,034 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera256,475,456 - 56,620,253 (+)NCBICelera
RGSC_v3.1262,476,190 - 62,631,267 (-)NCBI
Cytogenetic Map2q16NCBI
Cdh6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542617,187,197 - 17,311,186 (+)EnsemblChiLan1.0 Ensembl
ChiLan1.0NW_00495542617,187,191 - 17,316,730 (+)NCBIChiLan1.0ChiLan1.0
CDH6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2478,986,650 - 79,126,446 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1577,140,291 - 77,280,100 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0579,013,970 - 79,152,645 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1584,398,468 - 84,529,567 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl584,398,474 - 84,456,013 (-)EnsemblPanPan1.1 EnsemblpanPan2panpan1.1
Cdh6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mIctTri1.hap11239,910,336 - 240,034,319 (+)NCBImIctTri1.hap1
HiC_Itri_2NW_024407213221,968,561 - 222,092,145 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365189,283,459 - 9,334,722 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365189,280,194 - 9,403,320 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDH6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1617,531,892 - 17,660,079 (+)EnsemblSscrofa11.1 EnsemblsusScr11Sscrofa11.1
Sscrofa11.11617,531,862 - 17,660,081 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21618,351,336 - 18,480,953 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CDH6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mChlSab1.0.hap1463,258,336 - 63,393,940 (-)NCBImChlSab1.0.hap1
Vero_WHO_p1.0NW_02366607120,688,543 - 20,828,480 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
ChlSab1.1430,457,589 - 30,594,066 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl430,457,718 - 30,592,105 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Cdh6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475923,160,049 - 23,305,922 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
HetGla_female_1.0 EnsemblNW_00462475923,166,122 - 23,305,898 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
Naked mole-rat maternal Ensembl162,399,678 - 2,540,587 (-)Ensembl
Cdh6
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v13167,923,543 - 168,062,484 (+)NCBIRrattus_CSIRO_v1Rrattus_CSIRO_v1

Variants

.
Variants in CDH6
593 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 33 22 12 14 10

Sequence


Ensembl Acc Id: ENSCAFT00000030111   ⟹   ENSCAFP00000027985
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl475,950,999 - 75,961,779 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845004939   ⟹   ENSCAFP00845003939
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl476,514,925 - 76,565,306 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845004968   ⟹   ENSCAFP00845003961
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl476,514,925 - 76,565,306 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845004986   ⟹   ENSCAFP00845003974
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl476,518,822 - 76,565,306 (-)Ensembl
RefSeq Acc Id: XM_038474281   ⟹   XP_038330209
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1476,203,034 - 76,258,370 (-)NCBI
RefSeq Acc Id: XM_038500628   ⟹   XP_038356556
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha475,581,781 - 75,637,173 (-)NCBI
RefSeq Acc Id: XM_038535409   ⟹   XP_038391337
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0476,860,858 - 76,916,322 (-)NCBI
RefSeq Acc Id: XM_038599683   ⟹   XP_038455611
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0476,332,328 - 76,387,656 (-)NCBI
RefSeq Acc Id: XM_038664001   ⟹   XP_038519929
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0476,509,374 - 76,565,038 (-)NCBI
Ensembl Acc Id: ENSCAFP00000027985   ⟸   ENSCAFT00000030111
RefSeq Acc Id: XP_038330209   ⟸   XM_038474281
RefSeq Acc Id: XP_038455611   ⟸   XM_038599683
RefSeq Acc Id: XP_038519929   ⟸   XM_038664001
- UniProtKB: A0A8C0L4S3 (UniProtKB/TrEMBL),   A0A8I3MHT0 (UniProtKB/TrEMBL),   A0A8C0KZS9 (UniProtKB/TrEMBL),   A0A8I3MLY7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038356556   ⟸   XM_038500628
- UniProtKB: A0A8C0L4S3 (UniProtKB/TrEMBL),   A0A8I3MHT0 (UniProtKB/TrEMBL),   A0A8C0KZS9 (UniProtKB/TrEMBL),   A0A8I3MLY7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038391337   ⟸   XM_038535409
- UniProtKB: A0A8C0L4S3 (UniProtKB/TrEMBL),   A0A8I3MHT0 (UniProtKB/TrEMBL),   A0A8C0KZS9 (UniProtKB/TrEMBL),   A0A8I3MLY7 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCAFP00845003961   ⟸   ENSCAFT00845004968
Ensembl Acc Id: ENSCAFP00845003974   ⟸   ENSCAFT00845004986
Ensembl Acc Id: ENSCAFP00845003939   ⟸   ENSCAFT00845004939
Protein Domains
Cadherin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000018951 Ensembl
  ENSCAFG00845002783 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00845004939 ENTREZGENE
  ENSCAFT00845004939.1 UniProtKB/TrEMBL
  ENSCAFT00845004968.1 UniProtKB/TrEMBL
  ENSCAFT00845004986.1 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
KEGG Report cfa:479376 UniProtKB/TrEMBL
NCBI Gene LOC479376 ENTREZGENE
PANTHER CADHERIN-6 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 A0A8C0KZS9 ENTREZGENE
  A0A8C0L4S3 ENTREZGENE
  A0A8I3MHT0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MLY7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MP54_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:50872 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-01-23 CDH6  cadherin 6  LOC479376  cadherin-6  Symbol and/or name change 5135510 APPROVED