Cdhr5 (cadherin-related family member 5) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Cdhr5 (cadherin-related family member 5) Rattus norvegicus
Analyze
Symbol: Cdhr5
Name: cadherin-related family member 5
RGD ID: 620504
Description: Enables calcium ion binding activity. Involved in cell adhesion. Located in clathrin-coated pit. Orthologous to human CDHR5 (cadherin related family member 5); INTERACTS WITH 1-naphthyl isothiocyanate; 2,2',4,4'-Tetrabromodiphenyl ether; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: GP100; MGC114263; mu-protocadherin; Mucdhl; mucin and cadherin like; mucin and cadherin-like; Mupcdh
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
GRCr81205,802,686 - 205,811,184 (-)NCBIGRCr8
mRatBN7.21196,373,110 - 196,381,609 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1196,373,112 - 196,381,543 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1204,718,592 - 204,726,996 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01211,845,367 - 211,853,773 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01204,519,505 - 204,527,911 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01214,255,118 - 214,263,848 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1214,255,110 - 214,263,581 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01221,172,656 - 221,181,113 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41201,462,419 - 201,470,823 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11201,613,420 - 201,621,823 (-)NCBI
Celera1194,006,967 - 194,015,371 (-)NCBICelera
Cytogenetic Map1q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. mu-Protocadherin, a novel developmentally regulated protocadherin with mucin-like domains. Goldberg M, etal., J Biol Chem 2000 Aug 11;275(32):24622-9.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:19056867   PMID:22202456   PMID:23376485   PMID:23533145   PMID:24725409  


Genomics

Comparative Map Data
Cdhr5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81205,802,686 - 205,811,184 (-)NCBIGRCr8
mRatBN7.21196,373,110 - 196,381,609 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1196,373,112 - 196,381,543 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1204,718,592 - 204,726,996 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01211,845,367 - 211,853,773 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01204,519,505 - 204,527,911 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01214,255,118 - 214,263,848 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1214,255,110 - 214,263,581 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01221,172,656 - 221,181,113 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41201,462,419 - 201,470,823 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11201,613,420 - 201,621,823 (-)NCBI
Celera1194,006,967 - 194,015,371 (-)NCBICelera
Cytogenetic Map1q41NCBI
CDHR5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811616,583 - 624,955 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11616,577 - 626,078 (-)EnsemblGRCh38hg38GRCh38
GRCh3711616,583 - 624,955 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611606,575 - 615,007 (-)NCBINCBI36Build 36hg18NCBI36
Celera11681,712 - 690,214 (-)NCBICelera
Cytogenetic Map11p15.5NCBI
HuRef11431,847 - 440,345 (-)NCBIHuRef
CHM1_111615,575 - 624,073 (-)NCBICHM1_1
T2T-CHM13v2.011665,199 - 673,567 (-)NCBIT2T-CHM13v2.0
Cdhr5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397140,848,993 - 140,856,708 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7140,848,996 - 140,856,699 (-)EnsemblGRCm39 Ensembl
GRCm387141,269,080 - 141,276,795 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7141,269,083 - 141,276,786 (-)EnsemblGRCm38mm10GRCm38
MGSCv377148,454,984 - 148,462,685 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367141,120,405 - 141,128,094 (-)NCBIMGSCv36mm8
Celera7141,062,818 - 141,070,519 (-)NCBICelera
Cytogenetic Map7F5NCBI
cM Map786.58NCBI
Cdhr5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495547611,435,642 - 11,442,873 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495547611,435,677 - 11,442,338 (+)NCBIChiLan1.0ChiLan1.0
CDHR5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v292,995,317 - 3,004,233 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1112,211,515 - 2,220,429 (-)NCBINHGRI_mPanPan1
PanPan1.1 Ensembl11652,671 - 659,959 (-)Ensemblpanpan1.1panPan2
CDHR5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha1825,360,564 - 25,366,707 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01826,296,145 - 26,302,287 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1826,296,548 - 26,302,221 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11825,805,656 - 25,811,799 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01825,450,606 - 25,456,749 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01826,062,942 - 26,069,209 (-)NCBIUU_Cfam_GSD_1.0
Cdhr5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947449,879 - 457,827 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936888449,976 - 457,618 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936888449,846 - 457,881 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDHR5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2375,726 - 382,719 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12376,449 - 382,713 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22291,843 - 298,829 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CDHR5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11435,562 - 443,116 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1435,622 - 443,156 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603897,495,976 - 97,503,716 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdhr5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476621,843,518 - 21,850,506 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476621,843,506 - 21,849,827 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cdhr5
19 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:51
Count of miRNA genes:48
Interacting mature miRNAs:51
Transcripts:ENSRNOT00000044238
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
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642644214537671Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350581201284552Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1143506580212458660Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144017057197814409Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1144267353196383668Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1144267353222987745Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1149448574221264292Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1151162512201278233Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512201278233Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1151162512201278233Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1151162512201278233Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1151162766225824951Rat
61343Bp28Blood pressure QTL 28arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1151646613196646613Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
2303622Vencon6Ventilatory control QTL 60.001respiration trait (VT:0001943)respiration rate (CMO:0000289)1154561505199561505Rat
4889428Stresp24Stress response QTL 240.05heart pumping trait (VT:2000009)absolute change in electrocardiographic low frequency R-R spectral component to high frequency R-R spectral component ratio (CMO:0002162)1155866514200866514Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1156677124201278233Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1156677124218753816Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1158633083203633083Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393213533942Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393243914901Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164747424209747424Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1164747424209747424Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1167909849212909849Rat
619614Bp78Blood pressure QTL 780.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1169112897197261052Rat
619614Bp78Blood pressure QTL 780.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1169112897197261052Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1169537671214537671Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1169537671214537671Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1171310381216310381Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1171629477216629477Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1171629477216629477Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1171629477216629477Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1171629477216629477Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1171629477216629477Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1171629477216629477Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1171629477216629477Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1171629477216629477Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1172609619217609619Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1173108781218108781Rat
631670Iddm10Insulin dependent diabetes mellitus QTL 101.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1174133260196383668Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1174133260219133260Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1176426412257976495Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1176550523221550523Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1176869060221869060Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1177227632256448636Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1177227632256448636Rat
1558658Bw59Body weight QTL 593.50.0003body mass (VT:0001259)body weight (CMO:0000012)1178784622223784622Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1178810256240830002Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
1302787Stl25Serum triglyceride level QTL 252.70.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1180359209210702199Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1180359209218108781Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1181133855226133855Rat
61378Bp43Blood pressure QTL 4322.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1181746937196383668Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1181759564214537555Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1181829673224569684Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1182623426219932796Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1183970203243914901Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1183970203243914901Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1184550676229550676Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1185145134221264292Rat
1359018Hrtrt20Heart rate QTL 203.08heart pumping trait (VT:2000009)heart rate (CMO:0000002)1185356336202902618Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1185356336231689108Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1188377360224054420Rat
6480780Insul18Insulin level QTL 184.11blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1189607473200611765Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1191019702246062233Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1191033875236033875Rat
631260Tcas2Tongue tumor susceptibility QTL 24.93tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)1192485903199050587Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1192825253243914732Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1193113876238113876Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1193422268214537671Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1195804352257091168Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1196248093241248093Rat
1358292Cm37Cardiac mass QTL 376.20.00000081heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1196248093241248093Rat

Markers in Region
AI481143  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21196,373,221 - 196,373,451 (+)MAPPERmRatBN7.2
Rnor_6.01214,255,230 - 214,255,459NCBIRnor6.0
Rnor_5.01221,172,768 - 221,172,997UniSTSRnor5.0
RGSC_v3.41201,462,531 - 201,462,760UniSTSRGSC3.4
Celera1194,007,079 - 194,007,308UniSTS
Cytogenetic Map1q41UniSTS
RH131072  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21196,373,224 - 196,373,416 (+)MAPPERmRatBN7.2
Rnor_6.01214,255,233 - 214,255,424NCBIRnor6.0
Rnor_5.01221,172,771 - 221,172,962UniSTSRnor5.0
RGSC_v3.41201,462,534 - 201,462,725UniSTSRGSC3.4
Celera1194,007,082 - 194,007,273UniSTS
RH 3.4 Map11437.6UniSTS
Cytogenetic Map1q41UniSTS


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 3 23
Low 15 16 19 2 2 11 6 23 11 2
Below cutoff 10 15 15 15 6 9 6 4 11 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000044238   ⟹   ENSRNOP00000044906
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1196,373,112 - 196,381,515 (-)Ensembl
Rnor_6.0 Ensembl1214,255,110 - 214,263,581 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116628   ⟹   ENSRNOP00000089658
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1196,373,112 - 196,381,515 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116993   ⟹   ENSRNOP00000096117
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1196,373,178 - 196,381,543 (-)Ensembl
RefSeq Acc Id: NM_138525   ⟹   NP_612534
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81205,802,686 - 205,811,092 (-)NCBI
mRatBN7.21196,373,110 - 196,381,514 (-)NCBI
Rnor_6.01214,255,118 - 214,263,522 (-)NCBI
Rnor_5.01221,172,656 - 221,181,113 (-)NCBI
RGSC_v3.41201,462,419 - 201,470,823 (-)RGD
Celera1194,006,967 - 194,015,371 (-)RGD
Sequence:
RefSeq Acc Id: XM_006230509   ⟹   XP_006230571
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81205,802,686 - 205,811,183 (-)NCBI
mRatBN7.21196,373,110 - 196,381,609 (-)NCBI
Rnor_6.01214,255,118 - 214,263,848 (-)NCBI
Rnor_5.01221,172,656 - 221,181,113 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063277893   ⟹   XP_063133963
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81205,802,686 - 205,811,184 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_612534   ⟸   NM_138525
- Peptide Label: precursor
- UniProtKB: Q4FZY9 (UniProtKB/Swiss-Prot),   Q9JIK1 (UniProtKB/Swiss-Prot),   A6HXT3 (UniProtKB/TrEMBL),   A0A8I6AQ62 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006230571   ⟸   XM_006230509
- Peptide Label: isoform X2
- UniProtKB: A0A8I6ACD8 (UniProtKB/TrEMBL),   A6HXT2 (UniProtKB/TrEMBL),   A6HXT1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000044906   ⟸   ENSRNOT00000044238
RefSeq Acc Id: ENSRNOP00000089658   ⟸   ENSRNOT00000116628
RefSeq Acc Id: ENSRNOP00000096117   ⟸   ENSRNOT00000116993
RefSeq Acc Id: XP_063133963   ⟸   XM_063277893
- Peptide Label: isoform X1
Protein Domains
Cadherin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JIK1-F1-model_v2 AlphaFold Q9JIK1 1-862 view protein structure

Transcriptome

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

Promoters
RGD ID:13690535
Promoter ID:EPDNEW_R1060
Type:initiation region
Name:Cdhr5_1
Description:cadherin-related family member 5
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01214,263,539 - 214,263,599EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620504 AgrOrtholog
BioCyc Gene G2FUF-56965 BioCyc
Ensembl Genes ENSRNOG00000017762 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055029274 UniProtKB/Swiss-Prot
  ENSRNOG00060033038 UniProtKB/Swiss-Prot
  ENSRNOG00065019254 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000044238 ENTREZGENE
  ENSRNOT00000044238.4 UniProtKB/Swiss-Prot
  ENSRNOT00000116628.1 UniProtKB/TrEMBL
  ENSRNOT00000116993.1 UniProtKB/TrEMBL
  ENSRNOT00055050805 UniProtKB/Swiss-Prot
  ENSRNOT00060057321 UniProtKB/Swiss-Prot
  ENSRNOT00065032420 UniProtKB/Swiss-Prot
Gene3D-CATH Cadherins UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7444666 IMAGE-MGC_LOAD
InterPro Cadherin UniProtKB/Swiss-Prot
  Cadherin-like UniProtKB/Swiss-Prot
  Cadherin-like_dom UniProtKB/TrEMBL
  Cadherin-like_sf UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:171554 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:114263 IMAGE-MGC_LOAD
NCBI Gene 171554 ENTREZGENE
PANTHER CADHERIN-87A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CADHERIN-RELATED FAMILY MEMBER 5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cdhr5 PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000017762 RatGTEx
  ENSRNOG00055029274 RatGTEx
  ENSRNOG00060033038 RatGTEx
  ENSRNOG00065019254 RatGTEx
SMART SM00112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6ACD8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AQ62 ENTREZGENE, UniProtKB/TrEMBL
  A6HXT1 ENTREZGENE, UniProtKB/TrEMBL
  A6HXT2 ENTREZGENE, UniProtKB/TrEMBL
  A6HXT3 ENTREZGENE, UniProtKB/TrEMBL
  CDHR5_RAT UniProtKB/Swiss-Prot
  Q4FZY9 ENTREZGENE
  Q9JIK1 ENTREZGENE
UniProt Secondary Q4FZY9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-05 Cdhr5  cadherin-related family member 5  Mucdhl  mucin and cadherin like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Mucdhl  mucin and cadherin like    mucin and cadherin-like  Name updated 1299863 APPROVED
2002-08-07 Mucdhl  mucin and cadherin-like      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains four cadherin-like ectodomains and a tandemly repeated region enriched in threonine, serine, and proline with similarity to those of mucins 633361