Cdh5 (cadherin 5) - Rat Genome Database

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Gene: Cdh5 (cadherin 5) Mus musculus
Analyze
Symbol: Cdh5
Name: cadherin 5
RGD ID: 1316531
MGI Page MGI
Description: Enables protein phosphatase binding activity. Involved in endothelial cell morphogenesis and regulation of establishment of cell polarity. Acts upstream of or within blood vessel maturation; cell-cell adhesion; and negative regulation of cell population proliferation. Located in several cellular components, including adherens junction; bicellular tight junction; and external side of plasma membrane. Is expressed in several structures, including alimentary system; brain; cardiovascular system; extraembryonic component; and limb. Used to study exudative vitreoretinopathy. Orthologous to human CDH5 (cadherin 5).
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: 7B4; 7B4/cadherin-5; AA408225; cadherin-5; Cd144; vascular endothelial cadherin; VE; VE-C; VE-Cad; VE-cadherin; Vec; VEcad; VECD
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398104,828,247 - 104,871,136 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8104,828,257 - 104,871,143 (+)EnsemblGRCm39 Ensembl
GRCm388104,101,613 - 104,144,504 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8104,101,625 - 104,144,511 (+)EnsemblGRCm38mm10GRCm38
MGSCv378106,625,525 - 106,668,402 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368106,990,828 - 107,033,630 (+)NCBIMGSCv36mm8
Celera8108,332,486 - 108,375,834 (+)NCBICelera
Cytogenetic Map8D3NCBI
cM Map853.04NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (EXP)
(25R)-cholest-5-ene-3beta,26-diol  (ISO)
1,2-dimethylhydrazine  (EXP)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
26-hydroxycholesterol  (ISO)
3-chloropropane-1,2-diol  (ISO)
3-methylcholanthrene  (EXP)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-hydroxyphenyl retinamide  (EXP)
5-fluorouracil  (EXP,ISO)
acetamide  (ISO)
acetic acid  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-D-galactose  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antirheumatic drug  (ISO)
aripiprazole  (ISO)
arsenous acid  (ISO)
Azoxymethane  (EXP)
benzo[a]pyrene  (EXP,ISO)
benzo[b]fluoranthene  (EXP)
Bis-(1-chloro-2-propyl) phosphate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
bisphenol F  (EXP)
cadmium dichloride  (ISO)
cantharidin  (EXP)
carbon nanotube  (EXP,ISO)
chlorpyrifos  (ISO)
chromium(6+)  (EXP)
cisplatin  (EXP)
cobalt dichloride  (ISO)
columbamine  (ISO)
cortisol  (ISO)
cumene  (EXP)
Cuprizon  (ISO)
D-glucose  (ISO)
dextran sulfate  (EXP)
diarsenic trioxide  (ISO)
diazinon  (ISO)
digitonin  (ISO)
dioxygen  (EXP,ISO)
diuron  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (ISO)
epoxiconazole  (EXP)
ethanol  (EXP,ISO)
flutamide  (ISO)
folic acid  (EXP)
furan  (ISO)
furosemide  (ISO)
galactose  (EXP)
glucose  (ISO)
hydrogen peroxide  (ISO)
isotretinoin  (ISO)
jaspamide  (ISO)
kaempferol  (EXP,ISO)
lipopolysaccharide  (EXP,ISO)
luteolin  (ISO)
lycorine  (ISO)
mercury dichloride  (ISO)
methamphetamine  (ISO)
methyllycaconitine  (ISO)
monocrotaline  (ISO)
N-acetyl-L-cysteine  (ISO)
N-Acetylleucyl-leucyl-methioninal  (ISO)
Octicizer  (EXP)
oroxylin A  (ISO)
oxaliplatin  (ISO)
ozone  (EXP,ISO)
paracetamol  (EXP)
PCB138  (EXP)
perfluorododecanoic acid  (ISO)
perfluoroheptanoic acid  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanesulfonamide  (ISO)
permethrin  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
procaine  (ISO)
progesterone  (ISO)
quercetin  (EXP)
resveratrol  (EXP,ISO)
SB 203580  (ISO)
SB 431542  (ISO)
silicon dioxide  (EXP,ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
sulforaphane  (ISO)
tert-butyl hydroperoxide  (ISO)
thioacetamide  (ISO)
titanium dioxide  (EXP,ISO)
toluene  (ISO)
topotecan  (ISO)
tributyl phosphate  (EXP)
triclosan  (ISO)
triphenyl phosphate  (EXP)
tris(2-butoxyethyl) phosphate  (EXP,ISO)
tris(2-chloroethyl) phosphate  (EXP)
valproic acid  (EXP,ISO)
varenicline  (ISO)
vinclozolin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adherens junction organization  (IBA,IEA,ISO)
bicellular tight junction assembly  (IEA,ISO)
blood vessel endothelial cell migration  (IEA,ISO)
blood vessel maturation  (IMP)
calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules  (IBA)
cell migration  (IBA)
cell morphogenesis  (IBA)
cell surface receptor signaling pathway  (ISO)
cell-cell adhesion  (IC,IMP,ISO)
cell-cell adhesion mediated by cadherin  (IBA,IEA,ISO)
cell-cell junction assembly  (IBA,ISO)
endothelial cell morphogenesis  (IMP)
homophilic cell adhesion via plasma membrane adhesion molecules  (IEA)
intracellular calcium ion homeostasis  (IEA,ISO)
negative regulation of cell population proliferation  (IGI)
negative regulation of endothelial cell apoptotic process  (IEA,ISO)
negative regulation of inflammatory response  (IEA,ISO)
negative regulation of microtubule polymerization  (IEA,ISO)
positive regulation of angiogenesis  (IEA,ISO)
positive regulation of BMP signaling pathway  (IEA,ISO)
positive regulation of cell migration  (IEA,ISO)
positive regulation of establishment of endothelial barrier  (IEA,ISO)
positive regulation of gene expression  (IEA,ISO)
positive regulation of intracellular signal transduction  (ISO)
positive regulation of protein-containing complex assembly  (IEA,ISO)
protein localization to bicellular tight junction  (IEA,ISO)
regulation of complement-dependent cytotoxicity  (ISO)
regulation of establishment of cell polarity  (IMP,ISO)
regulation of protein phosphorylation  (ISO)
regulation of vascular permeability  (IEA,ISO)
transforming growth factor beta receptor signaling pathway  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal angiogenesis  (IAGP)
abnormal cardiac outflow tract development  (IAGP)
abnormal cell death  (IAGP)
abnormal cellular extravasation  (IAGP)
abnormal common myeloid progenitor cell morphology  (IAGP)
abnormal definitive hematopoiesis  (IAGP)
abnormal hematopoietic stem cell physiology  (IAGP)
abnormal intersomitic vessel morphology  (IAGP)
abnormal leukocyte migration  (IAGP)
abnormal lymphatic vessel endothelial cell morphology  (IAGP)
abnormal lymphatic vessel endothelium morphology  (IAGP)
abnormal lymphatic vessel morphology  (IAGP)
abnormal ovary morphology  (IAGP)
abnormal placenta vasculature  (IAGP)
abnormal retina development  (IAGP)
abnormal retina vasculature morphology  (IAGP)
abnormal skin physiology  (IAGP)
abnormal somite development  (IAGP)
abnormal umbilical artery morphology  (IAGP)
abnormal umbilical cord blood vessel morphology  (IAGP)
abnormal uterus morphology  (IAGP)
abnormal vascular development  (IAGP)
abnormal vascular endothelial cell development  (IAGP)
abnormal vascular endothelial cell morphology  (IAGP)
abnormal vascular permeability  (IAGP)
abnormal vasculogenesis  (IAGP)
abnormal vein development  (IAGP)
abnormal visceral yolk sac blood island morphology  (IAGP)
abnormal vitelline vasculature morphology  (IAGP)
absent vitelline blood vessels  (IAGP)
decreased angiogenesis  (IAGP)
decreased liver weight  (IAGP)
decreased vascular permeability  (IAGP)
delayed heart development  (IAGP)
dilated dorsal aorta  (IAGP)
distended pericardium  (IAGP)
edema  (IAGP)
embryonic growth arrest  (IAGP)
embryonic growth retardation  (IAGP)
embryonic lethality during organogenesis, complete penetrance  (IAGP)
embryonic lethality during organogenesis, incomplete penetrance  (IAGP)
embryonic lethality, complete penetrance  (IAGP)
enlarged endometrial glands  (IAGP)
enlarged ovary  (IAGP)
enlarged uterus  (IAGP)
hemorrhage  (IAGP)
impaired neutrophil recruitment  (IAGP)
incomplete embryo turning  (IAGP)
incomplete somite formation  (IAGP)
increased angiogenesis  (IAGP)
increased apoptosis  (IAGP)
increased hematopoietic precursor cell number  (IAGP)
increased leukocyte cell number  (IAGP)
increased neutrophil cell number  (IAGP)
increased vascular permeability  (IAGP)
irregular heartbeat  (IAGP)
lethality throughout fetal growth and development, complete penetrance  (IAGP)
liver hypoplasia  (IAGP)
lymphedema  (IAGP)
no abnormal phenotype detected  (IAGP)
ovarian follicular cyst  (IAGP)
ovary cyst  (IAGP)
ovary fibrosis  (IAGP)
pallor  (IAGP)
preweaning lethality, incomplete penetrance  (IAGP)
small liver  (IAGP)
small pharyngeal arch  (IAGP)
uterus fibrosis  (IAGP)
uterus hypertrophy  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Genome-wide mapping of unselected transcripts from extraembryonic tissue of 7.5-day mouse embryos reveals enrichment in the t-complex and under-representation on the X chromosome. Ko MS, etal., Hum Mol Genet 1998 Nov;7(12):1967-78.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
5. Endothelial-to-mesenchymal transition in pulmonary hypertension. Ranchoux B, etal., Circulation. 2015 Mar 17;131(11):1006-18. doi: 10.1161/CIRCULATIONAHA.114.008750. Epub 2015 Jan 15.
6. Mouse MP Annotation Import Pipeline RGD automated import pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Nine Genes Mediate the Therapeutic Effects of Iodine-131 Radiotherapy in Thyroid Carcinoma Patients. Shuwen H, etal., Dis Markers. 2020 Jun 16;2020:9369341. doi: 10.1155/2020/9369341. eCollection 2020.
10. Elevated concentration of soluble vascular endothelial cadherin is associated with coronary atherosclerosis. Soeki T, etal., Circ J. 2004 Jan;68(1):1-5.
Additional References at PubMed
PMID:8555485   PMID:8786117   PMID:9177207   PMID:9220534   PMID:9655490   PMID:9864160   PMID:10207135   PMID:10349636   PMID:10428027   PMID:10499794   PMID:10508865   PMID:10688823  
PMID:10922068   PMID:10981960   PMID:11032855   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11331305   PMID:11439183   PMID:11564885   PMID:11950930   PMID:12015303   PMID:12049718  
PMID:12234928   PMID:12243749   PMID:12477932   PMID:12697838   PMID:12755332   PMID:12771128   PMID:12805065   PMID:12810700   PMID:12938162   PMID:12975353   PMID:14567980   PMID:14627725  
PMID:14681479   PMID:14701881   PMID:15107403   PMID:15215174   PMID:15289495   PMID:15489334   PMID:15541725   PMID:15604224   PMID:15689374   PMID:15691883   PMID:15746076   PMID:15747579  
PMID:15791001   PMID:15809310   PMID:15831702   PMID:15855637   PMID:15857912   PMID:15861137   PMID:15882861   PMID:15897346   PMID:15968386   PMID:16141072   PMID:16141073   PMID:16163360  
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PMID:17767158   PMID:17846325   PMID:17964124   PMID:18062955   PMID:18096689   PMID:18097473   PMID:18159948   PMID:18180305   PMID:18281348   PMID:18304521   PMID:18316602   PMID:18337748  
PMID:18353970   PMID:18397758   PMID:18403646   PMID:18480158   PMID:18483404   PMID:18498633   PMID:18505817   PMID:18508041   PMID:18528438   PMID:18594512   PMID:18604199   PMID:18606782  
PMID:18718461   PMID:18804439   PMID:18931657   PMID:18957513   PMID:19015309   PMID:19023080   PMID:19060331   PMID:19129494   PMID:19151727   PMID:19154719   PMID:19161227   PMID:19284699  
PMID:19334288   PMID:19380791   PMID:19420236   PMID:19451274   PMID:19503615   PMID:19571314   PMID:19635461   PMID:19665016   PMID:19703439   PMID:19729839   PMID:19853564   PMID:20030844  
PMID:20047332   PMID:20097443   PMID:20110533   PMID:20123094   PMID:20152176   PMID:20208005   PMID:20223757   PMID:20332120   PMID:20336138   PMID:20346953   PMID:20371769   PMID:20627076  
PMID:20711984   PMID:20724706   PMID:20730909   PMID:20811903   PMID:20848132   PMID:20876651   PMID:20960543   PMID:21246656   PMID:21267068   PMID:21396893   PMID:21401944   PMID:21421844  
PMID:21442253   PMID:21444752   PMID:21483770   PMID:21597012   PMID:21633169   PMID:21693521   PMID:21731673   PMID:21857650   PMID:21873635   PMID:21884682   PMID:21920357   PMID:21932312  
PMID:21983003   PMID:22025303   PMID:22040871   PMID:22064597   PMID:22126970   PMID:22246030   PMID:22271899   PMID:22276210   PMID:22306086   PMID:22392989   PMID:22421048   PMID:22442722  
PMID:22464328   PMID:22492353   PMID:22498737   PMID:22535667   PMID:22538088   PMID:22606350   PMID:22613570   PMID:22692047   PMID:22723298   PMID:22753134   PMID:22783020   PMID:22798526  
PMID:22851140   PMID:22859612   PMID:22932696   PMID:22962329   PMID:22975322   PMID:22975327   PMID:22983395   PMID:23028704   PMID:23071156   PMID:23122290   PMID:23169049   PMID:23354168  
PMID:23560082   PMID:23637775   PMID:23707896   PMID:23733346   PMID:23750244   PMID:23795570   PMID:23823180   PMID:23840823   PMID:23884445   PMID:23887639   PMID:23908467   PMID:23946446  
PMID:23948251   PMID:24003143   PMID:24139045   PMID:24153254   PMID:24154525   PMID:24259506   PMID:24348274   PMID:24386480   PMID:24407281   PMID:24425872   PMID:24487320   PMID:24567373  
PMID:24633789   PMID:24658686   PMID:24662752   PMID:24700724   PMID:24727028   PMID:24755984   PMID:24757004   PMID:24767999   PMID:24806444   PMID:24831012   PMID:24858855   PMID:24858856  
PMID:24952961   PMID:24969754   PMID:24990151   PMID:25083995   PMID:25084151   PMID:25139991   PMID:25186293   PMID:25241746   PMID:25264302   PMID:25266662   PMID:25271623   PMID:25290738  
PMID:25403566   PMID:25516967   PMID:25535917   PMID:25545837   PMID:25575930   PMID:25584796   PMID:25597280   PMID:25626335   PMID:25681586   PMID:25691664   PMID:25739401   PMID:25752958  
PMID:25978380   PMID:25995324   PMID:26027726   PMID:26120059   PMID:26138478   PMID:26163513   PMID:26169941   PMID:26204127   PMID:26214525   PMID:26276819   PMID:26385351   PMID:26396195  
PMID:26418893   PMID:26479710   PMID:26517044   PMID:26542011   PMID:26642851   PMID:26659641   PMID:26663395   PMID:26668327   PMID:26674379   PMID:26755743   PMID:26897025   PMID:27019112  
PMID:27046834   PMID:27050100   PMID:27056912   PMID:27068110   PMID:27125875   PMID:27251772   PMID:27325890   PMID:27432740   PMID:27514653   PMID:27522498   PMID:27528602   PMID:27559173  
PMID:27643869   PMID:27664421   PMID:27671872   PMID:27695000   PMID:27789228   PMID:27789626   PMID:27922003   PMID:28036337   PMID:28090691   PMID:28179430   PMID:28218627   PMID:28378742  
PMID:28450349   PMID:28526753   PMID:28527294   PMID:28560318   PMID:28701303   PMID:28705793   PMID:28779009   PMID:28809397   PMID:28844842   PMID:28854362   PMID:28890073   PMID:28924218  
PMID:29141987   PMID:29205257   PMID:29361560   PMID:29371594   PMID:29422515   PMID:29456135   PMID:29487191   PMID:29540665   PMID:29567677   PMID:29764841   PMID:29773646   PMID:29930007  
PMID:29986868   PMID:30040984   PMID:30098998   PMID:30102570   PMID:30111655   PMID:30201295   PMID:30204931   PMID:30225906   PMID:30258231   PMID:30297530   PMID:30354217   PMID:30382767  
PMID:30389913   PMID:30401632   PMID:30446775   PMID:30482854   PMID:30552233   PMID:30571485   PMID:30707047   PMID:30735538   PMID:30789911   PMID:30828992   PMID:31010826   PMID:31024547  
PMID:31112136   PMID:31130354   PMID:31138815   PMID:31142541   PMID:31185811   PMID:31186359   PMID:31289197   PMID:31319059   PMID:31461654   PMID:31519886   PMID:31566580   PMID:31582413  
PMID:31666588   PMID:31672914   PMID:31702554   PMID:31776260   PMID:31789590   PMID:31826650   PMID:31836710   PMID:31868583   PMID:31907354   PMID:31943281   PMID:31996681   PMID:32001436  
PMID:32044971   PMID:32078368   PMID:32182215   PMID:32232465   PMID:32294451   PMID:32298238   PMID:32312382   PMID:32327488   PMID:32405640   PMID:32415669   PMID:32502201   PMID:32544090  
PMID:32891959   PMID:32903671   PMID:33227706   PMID:33347679   PMID:33372189   PMID:33454003   PMID:33497368   PMID:33596666   PMID:33604918   PMID:33619517   PMID:33706307   PMID:33846290  
PMID:33908348   PMID:33931446   PMID:33972531   PMID:34007995   PMID:34146582   PMID:34267243   PMID:34321999   PMID:34338296   PMID:34395414   PMID:34464660   PMID:34497373   PMID:34542814  
PMID:34714866   PMID:34737342   PMID:34741805   PMID:34747973   PMID:34789016   PMID:34910918   PMID:35297995   PMID:35303432   PMID:35337816   PMID:35364055   PMID:35482005   PMID:35486098  
PMID:35529856   PMID:35599984   PMID:35649376   PMID:35864120   PMID:35918150   PMID:35977478   PMID:36194632   PMID:36277751   PMID:36318802   PMID:36596806   PMID:36697821   PMID:36796745  
PMID:36841833   PMID:36861441   PMID:36910472   PMID:36922518   PMID:37000875   PMID:37002228   PMID:37037405   PMID:37037595   PMID:37220183   PMID:37253744   PMID:37317851   PMID:37348503  
PMID:37385754   PMID:37511074   PMID:37702066   PMID:37730744   PMID:37774966   PMID:37832655   PMID:37852964   PMID:37861292   PMID:37894438   PMID:37936982   PMID:38123537   PMID:38148112  
PMID:38159569   PMID:38226173   PMID:38468566   PMID:38490996   PMID:39094818   PMID:39112792   PMID:39195920   PMID:39195969   PMID:39392189   PMID:39461968  


Genomics

Comparative Map Data
Cdh5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398104,828,247 - 104,871,136 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8104,828,257 - 104,871,143 (+)EnsemblGRCm39 Ensembl
GRCm388104,101,613 - 104,144,504 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8104,101,625 - 104,144,511 (+)EnsemblGRCm38mm10GRCm38
MGSCv378106,625,525 - 106,668,402 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368106,990,828 - 107,033,630 (+)NCBIMGSCv36mm8
Celera8108,332,486 - 108,375,834 (+)NCBICelera
Cytogenetic Map8D3NCBI
cM Map853.04NCBI
CDH5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381666,366,691 - 66,404,784 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1666,366,690 - 66,404,784 (+)EnsemblGRCh38hg38GRCh38
GRCh371666,400,594 - 66,438,687 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361664,958,064 - 64,996,190 (+)NCBINCBI36Build 36hg18NCBI36
Build 341664,958,063 - 64,996,189NCBI
Celera1650,909,482 - 50,944,587 (+)NCBICelera
Cytogenetic Map16q21NCBI
HuRef1652,277,104 - 52,314,656 (+)NCBIHuRef
CHM1_11667,807,788 - 67,845,939 (+)NCBICHM1_1
T2T-CHM13v2.01672,161,057 - 72,198,985 (+)NCBIT2T-CHM13v2.0
Cdh5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819821,875 - 860,931 (-)NCBIGRCr8
mRatBN7.219815,415 - 854,478 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19815,411 - 854,368 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx19813,201 - 850,834 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0191,580,002 - 1,617,637 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.019855,206 - 892,839 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0191,025,122 - 1,074,333 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl191,023,683 - 1,074,365 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0191,022,710 - 1,072,784 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.419779,350 - 816,108 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.119779,507 - 1,129,968 (-)NCBI
Celera19805,477 - 843,688 (-)NCBICelera
Cytogenetic Map19p14NCBI
Cdh5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543322,967,960 - 22,992,924 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543322,957,718 - 22,994,515 (+)NCBIChiLan1.0ChiLan1.0
CDH5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21875,868,996 - 75,907,239 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11681,781,113 - 81,819,347 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01646,684,545 - 46,722,740 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11665,787,426 - 65,825,360 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1665,787,370 - 65,825,360 (+)Ensemblpanpan1.1panPan2
CDH5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1582,830,505 - 82,863,931 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl582,830,939 - 82,863,882 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha582,820,021 - 82,852,406 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0583,268,385 - 83,300,767 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl583,268,594 - 83,300,713 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1583,091,349 - 83,123,732 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0582,784,959 - 82,805,255 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0583,417,122 - 83,449,500 (-)NCBIUU_Cfam_GSD_1.0
Cdh5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934942,814,114 - 42,850,388 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647516,738,748 - 16,775,123 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647516,738,772 - 16,775,000 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDH5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl627,108,597 - 27,142,177 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1627,108,560 - 27,142,145 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CDH5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1552,059,987 - 52,098,595 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl552,060,013 - 52,100,405 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604723,817,264 - 23,856,166 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdh5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474620,033,008 - 20,057,595 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474620,028,952 - 20,068,029 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cdh5
2974 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:646
Count of miRNA genes:417
Interacting mature miRNAs:485
Transcripts:ENSMUST00000034339
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300560Tgl1_mtriglyceride level 1 (mouse)Not determined8102486208111650036Mouse
4141435Fbtq3_mfemoral bone trait QTL 3 (mouse)Not determined8100965309130127694Mouse
11252141Fdr2_mfat response to dietary restriction 2 (mouse)898390634130127694Mouse
1302105Im1_mImmunoregulatory 1 (mouse)Not determined899828531130127694Mouse
1357470Obq16_mobesity QTL 16 (mouse)Not determined876411976110412125Mouse
1301080Sluc9_msusceptibility to lung cancer 9 (mouse)Not determined899828531130127694Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined835109930115563747Mouse
1301767Fcsa2_mfemoral cross-sectional area 2 (mouse)Not determined871032003105032123Mouse
10412234Nhdlq14_mnon-HDL QTL 14 (mouse)Not determined876411976110412125Mouse
1301766Desp1_mdespair 1 (mouse)Not determined885486208119486373Mouse
1301253Skmw2_mskeletal muscle weight 2 (mouse)Not determined886443553120443701Mouse
1301316Dntcs1_mdental caries susceptibility 1 (mouse)Not determined8103443553127781786Mouse
1357708Orq1_movulation rate QTL 1 (mouse)Not determined871740461124622354Mouse
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832506572117965439Mouse
1300681Pgia22_mproteoglycan induced arthritis 22 (mouse)Not determined8102486208116025457Mouse
10755519Wbc1_mwhite blood cell count 1 (mouse)882345783116345783Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837867154110326632Mouse
1301581Char2_mP. chabaudi malaria resistance QTL 2 (mouse)Not determined879808806113809031Mouse
1301874Hdlq16_mHDL QTL 16 (mouse)Not determined876411976110412125Mouse
1357494Obsty2_mobesity 2 (mouse)Not determined896245241129745061Mouse
1301872Cd4ts3_mCD4 T cell subset 3 (mouse)Not determined872122809106123021Mouse
10045619Heal14_mwound healing/regeneration 14 (mouse)Not determined886443553120443701Mouse
1558780Idd22_minsulin dependent diabetes susceptibility 22 (mouse)Not determined871829531105829637Mouse
1300920Pitm3_mprion incubation time 3 (mouse)Not determined873929123107929226Mouse
12880431Fgf23lq2_mFGF23 serum level QTL 2 (mouse)897626632130127694Mouse
10755530Wbc2_mwhite blood cell count 2 (mouse)881819296115819296Mouse
1302049Heal1_mwound healing/regeneration 1 (mouse)Not determined886443553120443701Mouse
27226796Scvln16_msacral vertebrae length 2, 16 week (mouse)889726628130027694Mouse
4142283Imraq2_mimmune response to AAV2 QTL 2 (mouse)Not determined871032003105032123Mouse
27095912Pglq14_mpelvic girdle length QTL 14, 16 week (mouse)874126628126826739Mouse
1301099Cbm2_mcerebellum weight 2 (mouse)Not determined879245241113245331Mouse
4142023W3q5_mweight 3 weeks QTL 5 (mouse)Not determined71740461124622354Mouse
1301481Lith11_mlithogenic gene 11 (mouse)Not determined898563635130127694Mouse
1558890Lith18_mlithogenic gene 18 (mouse)Not determined876402145110402251Mouse

Markers in Region
19.MMHAP91FRG7.seq  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388104,124,629 - 104,124,824UniSTSGRCm38
MGSCv378106,648,529 - 106,648,724UniSTSGRCm37
Celera8108,355,596 - 108,355,791UniSTS
Cytogenetic Map8D3UniSTS
cM Map851.0UniSTS
Whitehead_YAC8 UniSTS
D8Mit212  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388104,120,445 - 104,120,591UniSTSGRCm38
MGSCv378106,644,345 - 106,644,491UniSTSGRCm37
Celera8108,351,344 - 108,351,490UniSTS
Cytogenetic Map8D3UniSTS
cM Map850.0UniSTS
Whitehead Genetic851.4UniSTS
Whitehead_YAC8 UniSTS
RH124687  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388104,144,281 - 104,144,458UniSTSGRCm38
MGSCv378106,668,181 - 106,668,358UniSTSGRCm37
Celera8108,375,613 - 108,375,790UniSTS
Cytogenetic Map8D1UniSTS
Cytogenetic Map8D3UniSTS
cM Map851.0UniSTS
RH125782  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388104,144,267 - 104,144,434UniSTSGRCm38
MGSCv378106,668,167 - 106,668,334UniSTSGRCm37
Celera8108,375,599 - 108,375,766UniSTS
Cytogenetic Map8D1UniSTS
Cytogenetic Map8D3UniSTS
cM Map851.0UniSTS
Whitehead/MRC_RH81223.84UniSTS
Cdh5  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8D3UniSTS
cM Map851.0UniSTS
cM Map851.0UniSTS
Cdh5  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8D3UniSTS
Cdh5  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8D3UniSTS
cM Map851.0UniSTS
Cdh5  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8D3UniSTS
Cdh5  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8D3UniSTS
MGI:3803003  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8D3UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000034339   ⟹   ENSMUSP00000034339
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8104,828,257 - 104,871,143 (+)Ensembl
GRCm38.p6 Ensembl8104,101,625 - 104,144,511 (+)Ensembl
Ensembl Acc Id: ENSMUST00000209911   ⟹   ENSMUSP00000147286
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8104,837,939 - 104,839,649 (+)Ensembl
GRCm38.p6 Ensembl8104,111,307 - 104,113,017 (+)Ensembl
RefSeq Acc Id: NM_009868   ⟹   NP_033998
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398104,828,257 - 104,871,134 (+)NCBI
GRCm388104,101,625 - 104,144,502 (+)NCBI
MGSCv378106,625,525 - 106,668,402 (+)RGD
Celera8108,332,486 - 108,375,834 (+)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006530630   ⟹   XP_006530693
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398104,828,247 - 104,871,136 (+)NCBI
GRCm388104,101,613 - 104,144,504 (+)NCBI
Sequence:
RefSeq Acc Id: NP_033998   ⟸   NM_009868
- Peptide Label: preproprotein
- UniProtKB: O35542 (UniProtKB/Swiss-Prot),   P55284 (UniProtKB/Swiss-Prot),   Q3TJ23 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006530693   ⟸   XM_006530630
- Peptide Label: isoform X1
- UniProtKB: O35542 (UniProtKB/Swiss-Prot),   P55284 (UniProtKB/Swiss-Prot),   Q3TJ23 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000034339   ⟸   ENSMUST00000034339
Ensembl Acc Id: ENSMUSP00000147286   ⟸   ENSMUST00000209911
Protein Domains
Cadherin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P55284-F1-model_v2 AlphaFold P55284 1-784 view protein structure

Promoters
RGD ID:8667991
Promoter ID:EPDNEW_M12026
Type:initiation region
Name:Cdh5_1
Description:Mus musculus cadherin 5 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm388104,101,678 - 104,101,738EPDNEW
RGD ID:6842918
Promoter ID:MM_KWN:55467
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Kidney,   Lung
Transcripts:NM_009868
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv368106,625,331 - 106,625,831 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:105057 AgrOrtholog
Ensembl Genes ENSMUSG00000031871 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000034339 ENTREZGENE
  ENSMUST00000034339.10 UniProtKB/Swiss-Prot
  ENSMUST00000209911.2 UniProtKB/TrEMBL
Gene3D-CATH 4.10.900.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cadherins UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cadherin-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cadherin-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cadherin_cytoplasmic-dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Catenin_binding_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:12562 UniProtKB/Swiss-Prot
MGD MGI:105057 ENTREZGENE
NCBI Gene 12562 ENTREZGENE
PANTHER PTHR24027 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR24027:SF89 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cadherin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cdh5 PhenoGen
PRINTS CADHERIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SM00112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49313 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A1B0GQW9_MOUSE UniProtKB/TrEMBL
  CADH5_MOUSE UniProtKB/Swiss-Prot
  O35542 ENTREZGENE
  P55284 ENTREZGENE
  Q3TJ23 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary O35542 UniProtKB/Swiss-Prot