Cdh6 (cadherin 6) - Rat Genome Database

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Gene: Cdh6 (cadherin 6) Heterocephalus glaber
Analyze
Symbol: Cdh6
Name: cadherin 6
RGD ID: 18931045
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 cell junction (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cadherin-6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
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
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:21452207   PMID:21993625   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v13167,923,543 - 168,062,484 (+)NCBIRrattus_CSIRO_v1Rrattus_CSIRO_v1


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000004478   ⟹   ENSHGLP00000004416
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462475923,166,122 - 23,305,898 (-)Ensembl
Naked mole-rat maternal Ensembl162,399,678 - 2,540,587 (-)Ensembl
RefSeq Acc Id: XM_004848668   ⟹   XP_004848725
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462475923,160,049 - 23,305,922 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004848725 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAJ10652 (Get FASTA)   NCBI Sequence Viewer  
  EHA97274 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000004416
RefSeq Acc Id: XP_004848725   ⟸   XM_004848668
- UniProtKB: G5AJR4 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000004416   ⟸   ENSHGLT00000004478


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000003229 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000004478 ENTREZGENE
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 hgl:101696372 UniProtKB/TrEMBL
NCBI Gene Cdh6 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 G5AJR4 ENTREZGENE, UniProtKB/TrEMBL