CDH11 (cadherin 11) - Rat Genome Database

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Gene: CDH11 (cadherin 11) Sus scrofa
Analyze
Symbol: CDH11
Name: cadherin 11
RGD ID: 13955838
Description: ENCODES a protein that exhibits cadherin binding (inferred); calcium ion binding (inferred); INVOLVED IN aortic valve formation; cell migration; corticospinal tract morphogenesis (ortholog); ASSOCIATED WITH Elsahy-Waters syndrome (ortholog); genetic disease (ortholog); Moebius syndrome (ortholog); FOUND IN glutamatergic synapse (ortholog); Schaffer collateral - CA1 synapse (ortholog); synapse (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: cadherin 11, type 2, OB-cadherin (osteoblast); cadherin-11
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl625,783,597 - 25,933,634 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1625,782,746 - 25,933,753 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2623,708,343 - 23,798,843 (-)NCBISscrofa10.2Sscrofa10.2susScr3
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:12226715   PMID:14681463   PMID:17145712   PMID:17407547   PMID:22301074   PMID:23162011   PMID:30032202  


Genomics

Comparative Map Data
CDH11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl625,783,597 - 25,933,634 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1625,782,746 - 25,933,753 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2623,708,343 - 23,798,843 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CDH11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381664,943,753 - 65,123,744 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1664,943,753 - 65,126,112 (-)EnsemblGRCh38hg38GRCh38
GRCh371664,977,656 - 65,155,966 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361663,538,184 - 63,713,420 (-)NCBINCBI36Build 36hg18NCBI36
Build 341663,538,185 - 63,713,420NCBI
Celera1649,484,273 - 49,659,540 (-)NCBICelera
Cytogenetic Map16q21NCBI
HuRef1650,850,425 - 51,025,603 (-)NCBIHuRef
CHM1_11666,388,690 - 66,563,938 (-)NCBICHM1_1
T2T-CHM13v2.01670,732,330 - 70,912,379 (-)NCBIT2T-CHM13v2.0
Cdh11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398103,358,727 - 103,512,125 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8103,358,727 - 103,512,274 (-)EnsemblGRCm39 Ensembl
GRCm388102,632,095 - 102,785,493 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8102,632,095 - 102,785,642 (-)EnsemblGRCm38mm10GRCm38
MGSCv378105,156,895 - 105,309,011 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368105,522,124 - 105,674,205 (-)NCBIMGSCv36mm8
Celera8106,868,993 - 107,021,043 (-)NCBICelera
Cytogenetic Map8D1NCBI
cM Map850.44NCBI
Cdh11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8192,152,961 - 2,312,140 (+)NCBIGRCr8
mRatBN7.2192,148,447 - 2,305,754 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl192,148,458 - 2,304,272 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx192,138,285 - 2,294,837 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0192,905,067 - 3,061,627 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0192,180,332 - 2,336,874 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0192,391,181 - 2,551,245 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl192,393,059 - 2,551,245 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0192,372,260 - 2,531,571 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4192,225,209 - 2,382,805 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1192,380,123 - 2,380,442 (+)NCBI
Celera192,130,072 - 2,287,470 (+)NCBICelera
Cytogenetic Map19p14NCBI
Cdh11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543321,612,297 - 21,687,281 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543321,613,909 - 21,770,968 (-)NCBIChiLan1.0ChiLan1.0
CDH11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21874,445,794 - 74,623,499 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11680,357,007 - 80,533,939 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01645,261,269 - 45,436,597 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11664,367,862 - 64,543,189 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1664,367,862 - 64,475,028 (-)Ensemblpanpan1.1panPan2
CDH11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1583,977,267 - 84,122,712 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl584,038,317 - 84,122,110 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha584,033,015 - 84,079,562 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0584,409,502 - 84,557,344 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl584,411,628 - 84,557,341 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1584,232,531 - 84,381,087 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0583,924,826 - 84,072,777 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0584,557,786 - 84,705,744 (+)NCBIUU_Cfam_GSD_1.0
Cdh11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934943,926,784 - 44,075,712 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647515,511,804 - 15,662,330 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647515,513,402 - 15,662,330 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDH11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1550,652,628 - 50,825,640 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl550,649,627 - 50,775,440 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604725,098,253 - 25,288,448 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdh11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474621,345,310 - 21,503,822 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474621,345,304 - 21,501,542 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CDH11
5129 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 4 2 5 14 1 2 1
Low 6 2 3 2 9 1 1 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001244482 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021093362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021093363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021093364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021093365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021093366 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AEMK02000040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF033020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK236602 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK345363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK347005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK348223 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BE031806 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BF078663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX925335 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CF177736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CJ014787 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CN163671 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CU633602 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DB815182 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DN102386 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY417801 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EW104992 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EW135094 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EW209356 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EW478406 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EW577600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FD630734 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GFLN01122437 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSSCT00000033754   ⟹   ENSSSCP00000029075
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl625,783,597 - 25,933,634 (-)Ensembl
RefSeq Acc Id: NM_001244482   ⟹   NP_001231411
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1625,782,746 - 25,872,995 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021093362   ⟹   XP_020949021
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1625,783,595 - 25,933,753 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021093363   ⟹   XP_020949022
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1625,783,595 - 25,889,276 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021093364   ⟹   XP_020949023
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1625,783,595 - 25,912,751 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021093365   ⟹   XP_020949024
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1625,783,595 - 25,933,328 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021093366   ⟹   XP_020949025
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1625,783,595 - 25,896,467 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001231411   ⟸   NM_001244482
- Peptide Label: preproprotein
- UniProtKB: F1RFU7 (UniProtKB/TrEMBL),   A0A4X1UU14 (UniProtKB/TrEMBL),   A0A8D1KIB5 (UniProtKB/TrEMBL),   A0A8D1BCQ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020949021   ⟸   XM_021093362
- Peptide Label: isoform X1
- UniProtKB: A0A4X1UU14 (UniProtKB/TrEMBL),   F1RFU7 (UniProtKB/TrEMBL),   A0A8D1KIB5 (UniProtKB/TrEMBL),   A0A8D1BCQ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020949024   ⟸   XM_021093365
- Peptide Label: isoform X1
- UniProtKB: A0A4X1UU14 (UniProtKB/TrEMBL),   F1RFU7 (UniProtKB/TrEMBL),   A0A8D1KIB5 (UniProtKB/TrEMBL),   A0A8D1BCQ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020949023   ⟸   XM_021093364
- Peptide Label: isoform X1
- UniProtKB: A0A4X1UU14 (UniProtKB/TrEMBL),   F1RFU7 (UniProtKB/TrEMBL),   A0A8D1KIB5 (UniProtKB/TrEMBL),   A0A8D1BCQ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020949025   ⟸   XM_021093366
- Peptide Label: isoform X1
- UniProtKB: A0A4X1UU14 (UniProtKB/TrEMBL),   F1RFU7 (UniProtKB/TrEMBL),   A0A8D1KIB5 (UniProtKB/TrEMBL),   A0A8D1BCQ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020949022   ⟸   XM_021093363
- Peptide Label: isoform X1
- UniProtKB: A0A4X1UU14 (UniProtKB/TrEMBL),   F1RFU7 (UniProtKB/TrEMBL),   A0A8D1KIB5 (UniProtKB/TrEMBL),   A0A8D1BCQ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000029075   ⟸   ENSSSCT00000033754
Protein Domains
Cadherin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000002795 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005003834 UniProtKB/TrEMBL
  ENSSSCG00015046427 UniProtKB/TrEMBL
  ENSSSCG00025046635 UniProtKB/TrEMBL
  ENSSSCG00030041992 UniProtKB/TrEMBL
  ENSSSCG00035076187 UniProtKB/TrEMBL
  ENSSSCG00040064557 UniProtKB/TrEMBL
  ENSSSCG00045013962 UniProtKB/TrEMBL
  ENSSSCG00050008952 UniProtKB/TrEMBL
  ENSSSCG00060047920 UniProtKB/TrEMBL
  ENSSSCG00065010763 UniProtKB/TrEMBL
  ENSSSCG00070019432 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000033754 ENTREZGENE
  ENSSSCT00000033754.4 UniProtKB/TrEMBL
  ENSSSCT00005005798.1 UniProtKB/TrEMBL
  ENSSSCT00015061980.1 UniProtKB/TrEMBL
  ENSSSCT00025063388.1 UniProtKB/TrEMBL
  ENSSSCT00030058425.1 UniProtKB/TrEMBL
  ENSSSCT00035103644.1 UniProtKB/TrEMBL
  ENSSSCT00040088177.1 UniProtKB/TrEMBL
  ENSSSCT00045023817.1 UniProtKB/TrEMBL
  ENSSSCT00050012127.1 UniProtKB/TrEMBL
  ENSSSCT00060065034.1 UniProtKB/TrEMBL
  ENSSSCT00065014295.1 UniProtKB/TrEMBL
  ENSSSCT00070038446.1 UniProtKB/TrEMBL
  ENSSSCT00070038452.1 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_binding_dom_sf UniProtKB/TrEMBL
KEGG Report ssc:100525579 UniProtKB/TrEMBL
NCBI Gene CDH11 ENTREZGENE
PANTHER CADHERIN-11 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 A0A4X1UU14 ENTREZGENE
  A0A8D1BCQ2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1KIB5 ENTREZGENE, UniProtKB/TrEMBL
  F1RFU7 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A4X1UU14 UniProtKB/TrEMBL
VGNC ID VGNC:86475 ENTREZGENE