CDHR2 (cadherin related family member 2) - Rat Genome Database

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Gene: CDHR2 (cadherin related family member 2) Canis lupus familiaris
Analyze
Symbol: CDHR2
Name: cadherin related family member 2
RGD ID: 12364896
Description: ENCODES a protein that exhibits cadherin binding (inferred); calcium ion binding (inferred); cell adhesion molecule binding (inferred); INVOLVED IN adherens junction organization (inferred); brush border assembly (inferred); calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules (inferred); ASSOCIATED WITH Chromosome 5, Trisomy 5q (ortholog); Ehlers-Danlos syndrome dermatosparaxis type (ortholog); genetic disease (ortholog); FOUND IN adherens junction (inferred); apical plasma membrane (inferred); brush border (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cadherin-related family member 2; PCDH24; protocadherin 24
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1436,740,964 - 36,777,118 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl436,740,966 - 36,777,803 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha436,707,763 - 36,743,827 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0437,107,067 - 37,143,175 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl437,107,075 - 37,143,174 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1436,932,892 - 36,968,996 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0437,120,701 - 37,156,839 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0437,628,842 - 37,664,949 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CDHR2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1436,740,964 - 36,777,118 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl436,740,966 - 36,777,803 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha436,707,763 - 36,743,827 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0437,107,067 - 37,143,175 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl437,107,075 - 37,143,174 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1436,932,892 - 36,968,996 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0437,120,701 - 37,156,839 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0437,628,842 - 37,664,949 (-)NCBIUU_Cfam_GSD_1.0
CDHR2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385176,542,511 - 176,595,974 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5176,542,511 - 176,595,974 (+)EnsemblGRCh38hg38GRCh38
GRCh375175,969,512 - 176,022,975 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365175,908,971 - 175,955,375 (+)NCBINCBI36Build 36hg18NCBI36
Celera5172,478,089 - 172,531,637 (-)NCBICelera
Cytogenetic Map5q35.2NCBI
HuRef5170,893,401 - 170,947,042 (+)NCBIHuRef
CHM1_15175,402,210 - 175,455,196 (+)NCBICHM1_1
T2T-CHM13v2.05177,087,074 - 177,142,566 (+)NCBIT2T-CHM13v2.0
Cdhr2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391354,849,276 - 54,884,475 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1354,849,274 - 54,884,475 (+)EnsemblGRCm39 Ensembl
GRCm381354,701,463 - 54,736,662 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1354,701,461 - 54,736,662 (+)EnsemblGRCm38mm10GRCm38
MGSCv371354,802,824 - 54,838,023 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361354,711,085 - 54,746,277 (+)NCBIMGSCv36mm8
Celera1355,767,386 - 55,802,298 (+)NCBICelera
Cytogenetic Map13B1NCBI
cM Map1329.03NCBI
Cdhr2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8179,881,979 - 9,917,698 (-)NCBIGRCr8
mRatBN7.2179,876,853 - 9,913,356 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl179,876,860 - 9,912,575 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01710,415,044 - 10,450,589 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1710,415,123 - 10,439,691 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01712,540,996 - 12,576,334 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41715,937,987 - 15,962,796 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera179,951,957 - 9,976,839 (-)NCBICelera
Cytogenetic Map17p14NCBI
Cdhr2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540828,832,325 - 28,875,534 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540828,832,362 - 28,871,345 (+)NCBIChiLan1.0ChiLan1.0
CDHR2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24171,630,262 - 171,676,130 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15169,769,801 - 169,815,669 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05171,846,538 - 171,893,797 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15178,916,707 - 178,963,944 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5178,916,707 - 178,964,893 (+)Ensemblpanpan1.1panPan2
Cdhr2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213121,785,575 - 121,831,018 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936597831,855 - 857,013 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936597831,895 - 855,925 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDHR2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl281,318,407 - 81,361,606 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1281,319,179 - 81,361,598 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2282,920,844 - 82,963,238 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CDHR2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12378,571,170 - 78,602,699 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2378,571,792 - 78,602,552 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660759,688,711 - 9,736,431 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdhr2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473313,535,809 - 13,576,940 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473313,537,363 - 13,582,390 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CDHR2
372 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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 4
Low 1 11 5 1 5 2 12
Below cutoff 5 11 1 5 1 4 5 8 10 6

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005619181 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022417678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038473618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038473619 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038473620 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038494230 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038534691 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038534692 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038534693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038598996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038598997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038598998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038663300 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038663301 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038663302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000088 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000026388   ⟹   ENSCAFP00000024505
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl436,740,966 - 36,777,803 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000043870   ⟹   ENSCAFP00000041458
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl436,740,966 - 36,777,803 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845021655   ⟹   ENSCAFP00845017022
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl437,107,075 - 37,143,174 (-)Ensembl
RefSeq Acc Id: XM_005619181   ⟹   XP_005619238
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1436,740,964 - 36,777,118 (-)NCBI
Dog10K_Boxer_Tasha436,707,763 - 36,743,827 (-)NCBI
Sequence:
RefSeq Acc Id: XM_022417678   ⟹   XP_022273386
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1436,740,972 - 36,776,966 (-)NCBI
Dog10K_Boxer_Tasha436,707,777 - 36,743,753 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038473618   ⟹   XP_038329546
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1436,932,892 - 36,968,996 (-)NCBI
RefSeq Acc Id: XM_038473619   ⟹   XP_038329547
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1436,932,906 - 36,968,944 (-)NCBI
RefSeq Acc Id: XM_038473620   ⟹   XP_038329548
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1436,932,906 - 36,968,922 (-)NCBI
RefSeq Acc Id: XM_038494230   ⟹   XP_038350158
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha436,707,777 - 36,743,776 (-)NCBI
RefSeq Acc Id: XM_038534691   ⟹   XP_038390619
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0437,628,842 - 37,664,949 (-)NCBI
RefSeq Acc Id: XM_038534692   ⟹   XP_038390620
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0437,628,856 - 37,664,898 (-)NCBI
RefSeq Acc Id: XM_038534693   ⟹   XP_038390621
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0437,628,856 - 37,664,875 (-)NCBI
RefSeq Acc Id: XM_038598996   ⟹   XP_038454924
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0437,120,701 - 37,156,839 (-)NCBI
RefSeq Acc Id: XM_038598997   ⟹   XP_038454925
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0437,120,715 - 37,156,780 (-)NCBI
RefSeq Acc Id: XM_038598998   ⟹   XP_038454926
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0437,120,715 - 37,156,765 (-)NCBI
RefSeq Acc Id: XM_038663300   ⟹   XP_038519228
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0437,107,067 - 37,143,175 (-)NCBI
RefSeq Acc Id: XM_038663301   ⟹   XP_038519229
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0437,107,081 - 37,143,123 (-)NCBI
RefSeq Acc Id: XM_038663302   ⟹   XP_038519230
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0437,107,081 - 37,143,101 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_005619238   ⟸   XM_005619181
- UniProtKB: A0A8C0RB39 (UniProtKB/TrEMBL),   A0A8P0SVB6 (UniProtKB/TrEMBL),   A0A8C0SY71 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_022273386   ⟸   XM_022417678
- UniProtKB: A0A8C0RB39 (UniProtKB/TrEMBL),   A0A8P0SVB6 (UniProtKB/TrEMBL),   A0A8C0SY71 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000041458   ⟸   ENSCAFT00000043870
RefSeq Acc Id: ENSCAFP00000024505   ⟸   ENSCAFT00000026388
RefSeq Acc Id: XP_038329546   ⟸   XM_038473618
RefSeq Acc Id: XP_038329547   ⟸   XM_038473619
RefSeq Acc Id: XP_038329548   ⟸   XM_038473620
RefSeq Acc Id: XP_038454924   ⟸   XM_038598996
RefSeq Acc Id: XP_038454925   ⟸   XM_038598997
RefSeq Acc Id: XP_038454926   ⟸   XM_038598998
RefSeq Acc Id: XP_038519228   ⟸   XM_038663300
- UniProtKB: A0A8I3NHU1 (UniProtKB/TrEMBL),   A0A8C0SY71 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038519229   ⟸   XM_038663301
- UniProtKB: A0A8I3NHU1 (UniProtKB/TrEMBL),   A0A8C0SY71 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038519230   ⟸   XM_038663302
- UniProtKB: A0A8I3NHU1 (UniProtKB/TrEMBL),   A0A8C0SY71 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038350158   ⟸   XM_038494230
- UniProtKB: A0A8C0RB39 (UniProtKB/TrEMBL),   A0A8P0SVB6 (UniProtKB/TrEMBL),   A0A8C0SY71 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038390619   ⟸   XM_038534691
- UniProtKB: A0A8C0SY71 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038390620   ⟸   XM_038534692
- UniProtKB: A0A8C0SY71 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038390621   ⟸   XM_038534693
- UniProtKB: A0A8C0SY71 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845017022   ⟸   ENSCAFT00845021655
Protein Domains
Cadherin

Promoters
RGD ID:13682966
Promoter ID:EPDNEW_C1034
Type:multiple initiation site
Name:CDHR2_1
Description:cadherin related family member 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1436,777,086 - 36,777,146EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000016657 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030002503 UniProtKB/TrEMBL
  ENSCAFG00040017339 UniProtKB/TrEMBL
  ENSCAFG00845012169 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000043870.4 UniProtKB/TrEMBL
  ENSCAFT00030004616.1 UniProtKB/TrEMBL
  ENSCAFT00040032022.1 UniProtKB/TrEMBL
  ENSCAFT00040032209.1 UniProtKB/TrEMBL
  ENSCAFT00845021655 ENTREZGENE
  ENSCAFT00845021655.1 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 CDHR2 ENTREZGENE
PANTHER CADHERIN DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  CADHERIN RELATED FAMILY MEMBER 2 UniProtKB/TrEMBL
  CADHERIN-87A UniProtKB/TrEMBL
  PTHR24027 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 A0A8C0RB39 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0SY71 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0T0K5_CANLF UniProtKB/TrEMBL
  A0A8I3NHU1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0SVB6 ENTREZGENE
UniProt Secondary A0A8P0SVB6 UniProtKB/TrEMBL
VGNC ID VGNC:39038 ENTREZGENE