Cdh19 (cadherin 19) - Rat Genome Database

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Gene: Cdh19 (cadherin 19) Rattus norvegicus
Analyze
Symbol: Cdh19
Name: cadherin 19
RGD ID: 1307169
Description: Predicted to enable cadherin binding activity and calcium ion binding activity. Predicted to be involved in several processes, including calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules; cell-cell adhesion mediated by cadherin; and cell-cell junction organization. Predicted to be part of catenin complex. Predicted to be active in adherens junction. Orthologous to human CDH19 (cadherin 19); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cadherin 19, type 2; cadherin-19; LOC360835
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81328,450,361 - 28,561,932 (-)NCBIGRCr8
mRatBN7.21327,935,915 - 28,047,490 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1327,936,668 - 28,019,310 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1328,329,664 - 28,411,052 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01329,614,185 - 29,695,576 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01328,262,267 - 28,343,715 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01332,344,954 - 32,469,887 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1332,344,966 - 32,427,177 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01337,482,078 - 37,607,514 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41318,148,715 - 18,230,353 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11318,151,455 - 18,233,094 (-)NCBI
Celera1327,679,457 - 27,760,138 (-)NCBICelera
Cytogenetic Map13q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15580626  


Genomics

Comparative Map Data
Cdh19
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81328,450,361 - 28,561,932 (-)NCBIGRCr8
mRatBN7.21327,935,915 - 28,047,490 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1327,936,668 - 28,019,310 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1328,329,664 - 28,411,052 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01329,614,185 - 29,695,576 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01328,262,267 - 28,343,715 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01332,344,954 - 32,469,887 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1332,344,966 - 32,427,177 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01337,482,078 - 37,607,514 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41318,148,715 - 18,230,353 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11318,151,455 - 18,233,094 (-)NCBI
Celera1327,679,457 - 27,760,138 (-)NCBICelera
Cytogenetic Map13q11NCBI
CDH19
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381866,501,083 - 66,604,090 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1866,501,083 - 66,604,138 (-)EnsemblGRCh38hg38GRCh38
GRCh371864,168,320 - 64,271,327 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361862,322,301 - 62,422,196 (-)NCBINCBI36Build 36hg18NCBI36
Build 341862,322,300 - 62,422,196NCBI
Celera1860,889,278 - 60,989,190 (-)NCBICelera
Cytogenetic Map18q22.1NCBI
HuRef1860,868,984 - 60,971,955 (-)NCBIHuRef
CHM1_11864,163,645 - 64,266,628 (-)NCBICHM1_1
T2T-CHM13v2.01866,699,077 - 66,802,147 (-)NCBIT2T-CHM13v2.0
Cdh19
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391110,811,802 - 110,905,331 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1110,816,056 - 110,905,314 (-)EnsemblGRCm39 Ensembl
GRCm381110,888,002 - 110,977,601 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1110,888,326 - 110,977,584 (-)EnsemblGRCm38mm10GRCm38
MGSCv371112,785,772 - 112,873,949 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361112,716,742 - 112,804,919 (-)NCBIMGSCv36mm8
Celera1113,646,024 - 113,729,311 (-)NCBICelera
Cytogenetic Map1E2.1NCBI
cM Map150.78NCBI
Cdh19
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540250,112,516 - 50,213,896 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540250,110,907 - 50,213,882 (-)NCBIChiLan1.0ChiLan1.0
CDH19
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21784,005,355 - 84,107,699 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11869,697,969 - 69,800,300 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01859,852,350 - 59,954,744 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11863,156,263 - 63,258,546 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1863,156,263 - 63,258,767 (-)Ensemblpanpan1.1panPan2
CDH19
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1111,074,216 - 11,168,816 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl111,074,305 - 11,165,626 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha112,099,395 - 12,193,906 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0110,925,758 - 11,020,339 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl110,925,808 - 11,020,334 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1110,957,834 - 11,052,271 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0110,899,197 - 10,994,210 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0111,144,592 - 11,239,098 (+)NCBIUU_Cfam_GSD_1.0
Cdh19
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494424,452,037 - 24,483,848 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049381822,674 - 13,253 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDH19
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1155,669,420 - 155,758,548 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11155,669,361 - 155,758,550 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21172,916,611 - 173,006,358 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CDH19
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11813,155,504 - 13,256,781 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1813,187,487 - 13,256,691 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606012,513,300 - 12,621,161 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdh19
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479212,635,240 - 12,752,439 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462479212,633,803 - 12,752,267 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cdh19
551 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:20
Count of miRNA genes:19
Interacting mature miRNAs:20
Transcripts:ENSRNOT00000044628
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2317027Aia22Adjuvant induced arthritis QTL 222.29joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)13134266636Rat
738036Lnnr4Liver neoplastic nodule remodeling QTL 43.64liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)13142356786Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
631672Iddm12Insulin dependent diabetes mellitus QTL 122.20.0032blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)13599466834535351Rat
61339Bp24Blood pressure QTL 240.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13599466844807491Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317034Aia9Adjuvant induced arthritis QTL 94.62joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)131176653532331607Rat
2317044Aia23Adjuvant induced arthritis QTL 232.3joint integrity trait (VT:0010548)ankle joint diameter (CMO:0002148)131176653532331607Rat
1300163Cardf1Cardiac cell morphology QTL 14.18aorta morphology trait (VT:0000272)artery lesion measurement (CMO:0000975)131192944945417941Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131192944946193066Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat


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 renal system reproductive system respiratory system appendage
High
Medium
Low 3 19 26 10 19 10 8 8 23 10 24 10 8
Below cutoff 16 11 11 11 3 41 21 14 1

Sequence


RefSeq Acc Id: ENSRNOT00000044628   ⟹   ENSRNOP00000047360
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1327,936,668 - 28,019,310 (-)Ensembl
Rnor_6.0 Ensembl1332,344,966 - 32,427,177 (-)Ensembl
RefSeq Acc Id: NM_001009448   ⟹   NP_001009448
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81328,452,281 - 28,533,753 (-)NCBI
mRatBN7.21327,937,835 - 28,019,310 (-)NCBI
Rnor_6.01332,346,867 - 32,427,016 (-)NCBI
Rnor_5.01337,482,078 - 37,607,514 (-)NCBI
RGSC_v3.41318,148,715 - 18,230,353 (-)RGD
Celera1327,679,457 - 27,760,138 (-)RGD
Sequence:
RefSeq Acc Id: XM_017598843   ⟹   XP_017454332
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81328,450,361 - 28,561,931 (-)NCBI
mRatBN7.21327,935,915 - 28,047,489 (-)NCBI
Rnor_6.01332,344,954 - 32,453,990 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039090877   ⟹   XP_038946805
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81328,450,361 - 28,561,930 (-)NCBI
mRatBN7.21327,935,915 - 28,047,489 (-)NCBI
RefSeq Acc Id: XM_039090879   ⟹   XP_038946807
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81328,450,361 - 28,561,932 (-)NCBI
mRatBN7.21327,935,915 - 28,047,490 (-)NCBI
RefSeq Acc Id: XM_039090880   ⟹   XP_038946808
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81328,450,361 - 28,515,126 (-)NCBI
mRatBN7.21327,935,915 - 28,000,682 (-)NCBI
RefSeq Acc Id: NP_001009448   ⟸   NM_001009448
- Peptide Label: precursor
- UniProtKB: Q5NUI3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017454332   ⟸   XM_017598843
- Peptide Label: isoform X1
- UniProtKB: Q5NUI3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000047360   ⟸   ENSRNOT00000044628
RefSeq Acc Id: XP_038946807   ⟸   XM_039090879
- Peptide Label: isoform X2
- UniProtKB: F7FIC1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946805   ⟸   XM_039090877
- Peptide Label: isoform X1
- UniProtKB: Q5NUI3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946808   ⟸   XM_039090880
- Peptide Label: isoform X3
- UniProtKB: A6JSW5 (UniProtKB/TrEMBL)
Protein Domains
Cadherin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5NUI3-F1-model_v2 AlphaFold Q5NUI3 1-770 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307169 AgrOrtholog
BioCyc Gene G2FUF-18553 BioCyc
Ensembl Genes ENSRNOG00000029841 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000044628.3 UniProtKB/TrEMBL
Gene3D-CATH 4.10.900.10 UniProtKB/TrEMBL
  Cadherins UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin UniProtKB/TrEMBL
  Cadherin-like UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  Cadherin_cytoplasmic-dom UniProtKB/TrEMBL
  Catenin_binding_dom UniProtKB/TrEMBL
KEGG Report rno:360835 UniProtKB/TrEMBL
NCBI Gene 360835 ENTREZGENE
PANTHER CADHERIN-19 UniProtKB/TrEMBL
  PTHR24027 UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
  Cadherin_C UniProtKB/TrEMBL
PhenoGen Cdh19 PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000029841 RatGTEx
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/TrEMBL
UniProt A6JSW5 ENTREZGENE, UniProtKB/TrEMBL
  F7FIC1 ENTREZGENE, UniProtKB/TrEMBL
  Q5NUI3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-20 Cdh19  cadherin 19  Cdh19  cadherin 19, type 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Cdh19  cadherin 19, type 2  Cdh19_predicted  cadherin 19, type 2 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Cdh19_predicted  cadherin 19, type 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED