Ddr1 (discoidin domain receptor tyrosine kinase 1) - Rat Genome Database

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Gene: Ddr1 (discoidin domain receptor tyrosine kinase 1) Rattus norvegicus
Analyze
Symbol: Ddr1
Name: discoidin domain receptor tyrosine kinase 1
RGD ID: 2252
Description: Predicted to enable collagen binding activity and protein tyrosine kinase collagen receptor activity. Involved in several processes, including animal organ regeneration; collagen-activated tyrosine kinase receptor signaling pathway; and wound healing. Located in basolateral plasma membrane; brush border; and cytoplasm. Used to study idiopathic pulmonary fibrosis. Biomarker of congestive heart failure. Human ortholog(s) of this gene implicated in breast carcinoma; lung non-small cell carcinoma; osteosarcoma; and skin melanoma. Orthologous to human DDR1 (discoidin domain receptor tyrosine kinase 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2-acetamidofluorene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Cak; CD167 antigen-like family member A; cell adhesion kinase; discoidin domain receptor family member 1; discoidin domain receptor family, member 1; discoidin receptor tyrosine kinase; Drd1; epithelial discoidin domain receptor 1; epithelial discoidin domain-containing receptor 1; neurotrophic tyrosine kinase receptor type 4; Neurotrophic tyrosine kinase receptor type 4 (cell adhesion kinase); protein-tyrosine kinase 3; protein-tyrosine kinase PTK-3; PTK3D; tyrosine kinase DDR; tyrosine-protein kinase CAK
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
mRatBN7.2203,042,494 - 3,064,442 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl203,044,320 - 3,064,468 (+)Ensembl
Rnor_6.0203,553,430 - 3,574,959 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,552,929 - 3,575,780 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,652,154 - 5,671,944 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,194,265 - 3,214,611 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1203,202,454 - 3,214,838 (+)NCBI
Celera20470,029 - 489,383 (+)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-acetamidofluorene  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
arecoline  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butan-1-ol  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP)
calcitriol  (ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
cannabidiol  (ISO)
carbamazepine  (ISO)
cetrorelix  (ISO)
choline  (ISO)
cisplatin  (ISO)
Collagen  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP)
desogestrel  (ISO)
dexamethasone  (ISO)
diazinon  (ISO)
dibutyl phthalate  (EXP,ISO)
diclofenac  (ISO)
diethylstilbestrol  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
fenvalerate  (EXP)
flavonoids  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
imatinib  (ISO)
indometacin  (ISO)
isobutanol  (ISO)
L-methionine  (ISO)
lysophosphatidic acid  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (EXP)
mifepristone  (EXP)
mitomycin C  (ISO)
N-nitrosodiethylamine  (ISO)
N-Vinyl-2-pyrrolidone  (EXP)
nickel sulfate  (ISO)
nilotinib  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
phenobarbital  (EXP)
picoxystrobin  (ISO)
ponatinib  (ISO)
potassium dichromate  (ISO)
pyrimidifen  (ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
Soman  (EXP)
tert-butyl hydroperoxide  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Anticancer Effects of Mesothelin-Targeted Immunotoxin Therapy Are Regulated by Tyrosine Kinase DDR1. Ali-Rahmani F, etal., Cancer Res. 2016 Mar 15;76(6):1560-8. doi: 10.1158/0008-5472.CAN-15-2401. Epub 2015 Dec 30.
2. Regulation of neuronal type genes in congestive heart failure rats. Andersson KB, etal., Acta Physiol (Oxf). 2006 Jan;186(1):17-27.
3. Structural mechanisms determining inhibition of the collagen receptor DDR1 by selective and multi-targeted type II kinase inhibitors. Canning P, etal., J Mol Biol. 2014 Jun 26;426(13):2457-70. doi: 10.1016/j.jmb.2014.04.014. Epub 2014 Apr 23.
4. NSD2 circular RNA promotes metastasis of colorectal cancer by targeting miR-199b-5p-mediated DDR1 and JAG1 signalling. Chen LY, etal., J Pathol. 2019 May;248(1):103-115. doi: 10.1002/path.5238. Epub 2019 Feb 20.
5. Discoidin domain receptors and their ligand, collagen, are temporally regulated in fetal rat fibroblasts in vitro. Chin GS, etal., Plast Reconstr Surg. 2001 Mar;107(3):769-76.
6. The Extracellular Matrix Receptor Discoidin Domain Receptor 1 Regulates Collagen Transcription by Translocating to the Nucleus. Chiusa M, etal., J Am Soc Nephrol. 2019 Sep;30(9):1605-1624. doi: 10.1681/ASN.2018111160. Epub 2019 Aug 5.
7. MicroRNA-486-3p functions as a tumor suppressor in oral cancer by targeting DDR1. Chou ST, etal., J Exp Clin Cancer Res. 2019 Jun 28;38(1):281. doi: 10.1186/s13046-019-1283-z.
8. Discoidin Domain Receptor 1 Mediates Myosin-Dependent Collagen Contraction. Coelho NM, etal., Cell Rep. 2017 Feb 14;18(7):1774-1790. doi: 10.1016/j.celrep.2017.01.061.
9. Suppressing miR-199a-3p by promoter methylation contributes to tumor aggressiveness and cisplatin resistance of ovarian cancer through promoting DDR1 expression. Deng Y, etal., J Ovarian Res. 2017 Jul 25;10(1):50. doi: 10.1186/s13048-017-0333-4.
10. Expression and mutation analysis of the discoidin domain receptors 1 and 2 in non-small cell lung carcinoma. Ford CE, etal., Br J Cancer. 2007 Mar 12;96(5):808-14. doi: 10.1038/sj.bjc.6603614. Epub 2007 Feb 13.
11. 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.
12. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
13. Discoidin domain receptor inhibition reduces neuropathology and attenuates inflammation in neurodegeneration models. Hebron M, etal., J Neuroimmunol. 2017 Oct 15;311:1-9. doi: 10.1016/j.jneuroim.2017.07.009. Epub 2017 Aug 12.
14. Inhibition of DDR1-BCR signalling by nilotinib as a new therapeutic strategy for metastatic colorectal cancer. Jeitany M, etal., EMBO Mol Med. 2018 Apr;10(4). pii: emmm.201707918. doi: 10.15252/emmm.201707918.
15. Altered Expression of DDR1 in Clear Cell Renal Cell Carcinoma Correlates With miR-199a/b-5p and Patients' Outcome. Krazinski BE, etal., Cancer Genomics Proteomics. 2019 May-Jun;16(3):179-193. doi: 10.21873/cgp.20124.
16. Localization of discoidin domain receptors in rat kidney. Lee R, etal., Nephron Exp Nephrol. 2004;97(2):e62-70.
17. Effect of Hypoxia on DDR1 Expression in Pituitary Adenomas. Li S, etal., Med Sci Monit. 2015 Aug 19;21:2433-8. doi: 10.12659/MSM.894205.
18. Discoidin domain receptor 1-deletion ameliorates fibrosis and promotes adipose tissue beiging, brown fat activity, and increased metabolic rate in a mouse model of cardiometabolic disease. Lino M, etal., Mol Metab. 2020 Sep;39:101006. doi: 10.1016/j.molmet.2020.101006. Epub 2020 Apr 28.
19. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
20. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
21. Migration inhibition of mammary epithelial cells by Syk is blocked in the presence of DDR1 receptors. Neuhaus B, etal., Cell Mol Life Sci. 2011 Nov;68(22):3757-70. doi: 10.1007/s00018-011-0676-8. Epub 2011 Apr 17.
22. The Regulation of Matrix Metalloproteinase Expression and the Role of Discoidin Domain Receptor 1/2 Signalling in Zoledronate-treated PC3 Cells. Reel B, etal., J Cancer. 2015 Aug 28;6(10):1020-9. doi: 10.7150/jca.12733. eCollection 2015.
23. Discoidin domain receptors: A promising target in melanoma. Reger de Moura C, etal., Pigment Cell Melanoma Res. 2019 Sep;32(5):697-707. doi: 10.1111/pcmr.12809. Epub 2019 Jul 22.
24. GOA pipeline RGD automated data pipeline
25. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
26. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
27. Comprehensive gene review and curation RGD comprehensive gene curation
28. Silencing of sinusoidal DDR1 reduces murine liver metastasis by colon carcinoma. Romayor I, etal., Sci Rep. 2020 Oct 27;10(1):18398. doi: 10.1038/s41598-020-75395-w.
29. Multiple tyrosine protein kinases in rat hippocampal neurons: isolation of Ptk-3, a receptor expressed in proliferative zones of the developing brain. Sanchez MP, etal., Proc Natl Acad Sci U S A 1994 Mar 1;91(5):1819-23.
30. Discoidin domain receptor 1 (DDR1), a promising biomarker, induces epithelial to mesenchymal transition in renal cancer cells. Song J, etal., Tumour Biol. 2016 Aug;37(8):11509-21. doi: 10.1007/s13277-016-5021-2. Epub 2016 Mar 28.
31. Tumor-extrinsic discoidin domain receptor 1 promotes mammary tumor growth by regulating adipose stromal interleukin 6 production in mice. Sun X, etal., J Biol Chem. 2018 Feb 23;293(8):2841-2849. doi: 10.1074/jbc.RA117.000672. Epub 2018 Jan 3.
32. Discoidin domain receptor 1 (DDR1) ablation promotes tissue fibrosis and hypoxia to induce aggressive basal-like breast cancers. Takai K, etal., Genes Dev. 2018 Feb 1;32(3-4):244-257. doi: 10.1101/gad.301366.117. Epub 2018 Feb 26.
33. Inhibition of EP300 and DDR1 synergistically alleviates pulmonary fibrosis in vitro and in vivo. Tao J, etal., Biomed Pharmacother. 2018 Oct;106:1727-1733. doi: 10.1016/j.biopha.2018.07.132. Epub 2018 Jul 30.
34. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
35. Novel role of sorting nexin 5 in renal D(1) dopamine receptor trafficking and function: implications for hypertension. Villar VA, etal., FASEB J. 2013 May;27(5):1808-19. doi: 10.1096/fj.12-208439. Epub 2012 Nov 29.
36. E2F1 silencing inhibits migration and invasion of osteosarcoma cells via regulating DDR1 expression. Wang Z, etal., Int J Oncol. 2017 Dec;51(6):1639-1650. doi: 10.3892/ijo.2017.4165. Epub 2017 Oct 16.
37. Fate and functional roles of Prominin 1+ cells in liver injury and cancer. Wu R, etal., Sci Rep. 2020 Nov 10;10(1):19412. doi: 10.1038/s41598-020-76458-8.
38. Identification of expressed genes characterizing long-term survival in malignant glioma patients. Yamanaka R, etal., Oncogene. 2006 Sep 28;25(44):5994-6002. doi: 10.1038/sj.onc.1209585. Epub 2006 May 1.
39. DDR1 promotes breast tumor growth by suppressing antitumor immunity. Zhong X, etal., Oncol Rep. 2019 Dec;42(6):2844-2854. doi: 10.3892/or.2019.7338. Epub 2019 Sep 27.
40. 2-Amino-2,3-dihydro-1H-indene-5-carboxamide-Based Discoidin Domain Receptor 1 (DDR1) Inhibitors: Design, Synthesis, and in Vivo Antipancreatic Cancer Efficacy. Zhu D, etal., J Med Chem. 2019 Aug 22;62(16):7431-7444. doi: 10.1021/acs.jmedchem.9b00365. Epub 2019 Aug 2.
Additional References at PubMed
PMID:9659899   PMID:10970885   PMID:11283268   PMID:12065315   PMID:12397034   PMID:12477932   PMID:16472941   PMID:16502470   PMID:16806867   PMID:19199708   PMID:21044884   PMID:23376485  
PMID:23382219   PMID:24018687   PMID:25630038  


Genomics

Candidate Gene Status
Ddr1 is a candidate Gene for QTL Edcs3
Comparative Map Data
Ddr1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2203,042,494 - 3,064,442 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl203,044,320 - 3,064,468 (+)Ensembl
Rnor_6.0203,553,430 - 3,574,959 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,552,929 - 3,575,780 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,652,154 - 5,671,944 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,194,265 - 3,214,611 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1203,202,454 - 3,214,838 (+)NCBI
Celera20470,029 - 489,383 (+)NCBICelera
Cytogenetic Map20p12NCBI
DDR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38630,880,970 - 30,900,156 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl630,876,421 - 30,900,156 (+)EnsemblGRCh38hg38GRCh38
GRCh37630,848,747 - 30,867,933 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36630,959,840 - 30,975,912 (+)NCBINCBI36hg18NCBI36
Build 34630,964,144 - 30,975,910NCBI
Celera632,449,961 - 32,466,039 (+)NCBI
Cytogenetic Map6p21.33NCBI
HuRef630,652,534 - 30,668,027 (+)NCBIHuRef
CHM1_1630,854,040 - 30,870,114 (+)NCBICHM1_1
T2T-CHM13v2.0630,745,627 - 30,764,828 (+)NCBI
Ddr1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,992,459 - 36,015,633 (-)NCBIGRCm39mm39
GRCm39 Ensembl1735,992,459 - 36,015,513 (-)Ensembl
GRCm381735,681,567 - 35,704,741 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,681,567 - 35,704,621 (-)EnsemblGRCm38mm10GRCm38
MGSCv371735,818,512 - 35,841,084 (-)NCBIGRCm37mm9NCBIm37
MGSCv361735,289,620 - 35,312,040 (-)NCBImm8
Celera1739,195,716 - 39,218,204 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.7NCBI
Ddr1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955583820,931 - 841,654 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955583820,893 - 838,515 (+)NCBIChiLan1.0ChiLan1.0
DDR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1631,494,265 - 31,513,455 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl631,496,047 - 31,513,455 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0630,625,871 - 30,645,066 (+)NCBIMhudiblu_PPA_v0panPan3
DDR1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.112653,800 - 671,190 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl12653,807 - 670,543 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha12791,915 - 809,197 (+)NCBI
ROS_Cfam_1.012798,385 - 815,656 (+)NCBI
ROS_Cfam_1.0 Ensembl12798,388 - 816,365 (+)Ensembl
UMICH_Zoey_3.112657,734 - 674,983 (+)NCBI
UNSW_CanFamBas_1.012726,216 - 743,419 (+)NCBI
UU_Cfam_GSD_1.012794,051 - 811,286 (+)NCBI
Ddr1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494634,154,415 - 34,173,540 (+)NCBI
SpeTri2.0NW_004936837523,227 - 538,799 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDR1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl723,373,808 - 23,394,965 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1723,371,358 - 23,391,585 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2727,096,042 - 27,113,809 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DDR1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11741,564,271 - 41,583,404 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1741,564,992 - 41,575,682 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604430,581,668 - 30,601,055 (+)NCBIVero_WHO_p1.0
Ddr1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475424,880,496 - 24,896,995 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462475424,881,439 - 24,905,633 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D20Yum39  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,057,330 - 3,057,497 (+)MAPPERmRatBN7.2
Rnor_6.0203,568,635 - 3,568,801NCBIRnor6.0
Rnor_5.0205,665,620 - 5,665,786UniSTSRnor5.0
RGSC_v3.4203,208,287 - 3,208,453UniSTSRGSC3.4
Celera20483,059 - 483,225UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724519Bp144Blood pressure QTL 1440.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2013624629Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
61448Ciaa1CIA Autoantibody QTL 1300.001blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)2026463954597031Rat
61472Aia1Adjuvant induced arthritis QTL 1180.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2026463954597031Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:96
Count of miRNA genes:75
Interacting mature miRNAs:80
Transcripts:ENSRNOT00000001102
Prediction methods:Microtar, 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.


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 35 11 4 5 4 2 2 74 35 40 11 2
Low 8 46 37 14 37 6 9 1 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001166022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_013137 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601558 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601559 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601561 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601564 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098463 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC166604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX883047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB613563 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474118 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DN935615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L26525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000083223   ⟹   ENSRNOP00000069611
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,552,929 - 3,574,898 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000085380   ⟹   ENSRNOP00000071475
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,555,135 - 3,574,959 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000085635   ⟹   ENSRNOP00000072556
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,556,560 - 3,574,959 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000085946   ⟹   ENSRNOP00000070122
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,556,975 - 3,574,906 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088130   ⟹   ENSRNOP00000069693
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,558,827 - 3,562,581 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000089417   ⟹   ENSRNOP00000075331
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,045,643 - 3,064,447 (+)Ensembl
Rnor_6.0 Ensembl203,556,975 - 3,575,780 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090080   ⟹   ENSRNOP00000074328
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,044,320 - 3,064,468 (+)Ensembl
Rnor_6.0 Ensembl203,553,455 - 3,575,777 (+)Ensembl
RefSeq Acc Id: NM_001166022   ⟹   NP_001159494
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,044,212 - 3,063,656 (+)NCBI
Rnor_6.0203,555,135 - 3,574,959 (+)NCBI
Rnor_5.0205,652,154 - 5,671,944 (+)NCBI
RGSC_v3.4203,194,265 - 3,214,611 (+)RGD
Celera20470,029 - 489,383 (+)RGD
Sequence:
RefSeq Acc Id: NM_013137   ⟹   NP_037269
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,045,631 - 3,063,656 (+)NCBI
Rnor_6.0203,556,560 - 3,574,959 (+)NCBI
Rnor_5.0205,652,154 - 5,671,944 (+)NCBI
RGSC_v3.4203,194,265 - 3,214,611 (+)RGD
Celera20471,400 - 489,383 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601556   ⟹   XP_017457045
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,043,812 - 3,064,442 (+)NCBI
Rnor_6.0203,554,735 - 3,574,959 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601557   ⟹   XP_017457046
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,047,520 - 3,064,442 (+)NCBI
Rnor_6.0203,558,098 - 3,574,959 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601558   ⟹   XP_017457047
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,042,494 - 3,064,442 (+)NCBI
Rnor_6.0203,553,430 - 3,574,959 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601559   ⟹   XP_017457048
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,044,284 - 3,064,442 (+)NCBI
Rnor_6.0203,555,207 - 3,574,959 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601560   ⟹   XP_017457049
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,045,116 - 3,064,442 (+)NCBI
Rnor_6.0203,555,387 - 3,574,959 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601561   ⟹   XP_017457050
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,045,585 - 3,064,442 (+)NCBI
Rnor_6.0203,556,981 - 3,574,959 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601562   ⟹   XP_017457051
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,053,635 - 3,064,442 (+)NCBI
Rnor_6.0203,564,946 - 3,574,959 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039098462   ⟹   XP_038954390
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,042,708 - 3,064,442 (+)NCBI
RefSeq Acc Id: XM_039098463   ⟹   XP_038954391
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,044,284 - 3,064,442 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_037269   ⟸   NM_013137
- Peptide Label: precursor
- UniProtKB: B2GVB6 (UniProtKB/TrEMBL),   Q6MG19 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001159494   ⟸   NM_001166022
- Peptide Label: precursor
- UniProtKB: B2GVB6 (UniProtKB/TrEMBL),   Q6MG19 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457047   ⟸   XM_017601558
- Peptide Label: isoform X1
- UniProtKB: Q6MG19 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457045   ⟸   XM_017601556
- Peptide Label: isoform X1
- UniProtKB: Q6MG19 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457048   ⟸   XM_017601559
- Peptide Label: isoform X1
- UniProtKB: Q6MG19 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457049   ⟸   XM_017601560
- Peptide Label: isoform X1
- UniProtKB: Q6MG19 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457050   ⟸   XM_017601561
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K7S7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457046   ⟸   XM_017601557
- Peptide Label: isoform X1
- UniProtKB: Q6MG19 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457051   ⟸   XM_017601562
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000074328   ⟸   ENSRNOT00000090080
RefSeq Acc Id: ENSRNOP00000072556   ⟸   ENSRNOT00000085635
RefSeq Acc Id: ENSRNOP00000071475   ⟸   ENSRNOT00000085380
RefSeq Acc Id: ENSRNOP00000075331   ⟸   ENSRNOT00000089417
RefSeq Acc Id: ENSRNOP00000070122   ⟸   ENSRNOT00000085946
RefSeq Acc Id: ENSRNOP00000069611   ⟸   ENSRNOT00000083223
RefSeq Acc Id: ENSRNOP00000069693   ⟸   ENSRNOT00000088130
RefSeq Acc Id: XP_038954390   ⟸   XM_039098462
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038954391   ⟸   XM_039098463
- Peptide Label: isoform X2
Protein Domains
F5/8 type C   Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63474-F1-model_v2 AlphaFold Q63474 1-910 view protein structure

Transcriptome

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

Promoters
RGD ID:13701303
Promoter ID:EPDNEW_R11827
Type:initiation region
Name:Ddr1_1
Description:discoidin domain receptor tyrosine kinase 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11829  EPDNEW_R11828  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,555,167 - 3,555,227EPDNEW
RGD ID:13701310
Promoter ID:EPDNEW_R11828
Type:initiation region
Name:Ddr1_3
Description:discoidin domain receptor tyrosine kinase 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11827  EPDNEW_R11829  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,558,848 - 3,558,908EPDNEW
RGD ID:13701305
Promoter ID:EPDNEW_R11829
Type:multiple initiation site
Name:Ddr1_2
Description:discoidin domain receptor tyrosine kinase 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11827  EPDNEW_R11828  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,559,115 - 3,559,175EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 3567270 3567271 G A snv F344/NCrl (RGD), SR/JrHsd (2020), DA/OlaHsd (2019), F344/DuCrl (2019), SS/JrHsdMcwi (2019), ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), FHH/EurMcwi (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), ACI/N (MCW), F344/NRrrc (MCW), ACI/EurMcwi (RGD), FHH/EurMcwi (RGD), LL/MavRrrc (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD), ACI/EurMcwi (2019), ACI/N (2020), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE18/Stm (2020), LEXF11/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF2B/Stm (2019), LEXF3/Stm (2020), LL/MavRrrcAek (2020), SR/JrHsd (RGD)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 5664255 5664256 G A snv ACI/EurMcwi (MCW), F344/Jcl (KyushuU), FHH/EurMcwi (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), LL/MavRrrc (KNAW), SR/JrHsd (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), FHH/EurMcwi (KNAW), F344/NRrrc (Illumina) (KNAW), LE/OrlBarth (UDEL), Crl:SD (UDEL), F344/DuCrlCrlj (KyushuU), F344/NSlc (KyushuU), F344/Stm (KyushuU), COP/CrCrl (MCW & UW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 3206922 3206923 G A snv ACI/EurMcwi (MCW), F344/NHsd (ICAHN), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), FHH/EurMcwi (MDC), SS/JrHsdMcwi (MDC), ACI/N (KNAW), F344/NRrrc (KNAW), COP/CrCrl (MCW & UW), ACI/EurMcwi (ICL), F344/NCrl (ICL), FHH/EurMcwi (ICL), LL/MavRrrc (ICL), SR/JrHsd (ICL), SS/Jr (ICL), SS/JrHsdMcwi (ICL), HCR/1Mco (UMich), LCR/1Mco (UMich), HCR/2Mco (UMich), LCR/2Mco (UMich), DA/BklArbNsi (ICAHN), FHH/EurMcwi (MCW)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 3055966 3055967 G A snv ACI/EurMcwi (2019), SS/JrHsdMcwi (2019), DA/OlaHsd (2019), F344/DuCrl (2019), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE18/Stm (2020), LEXF11/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF2B/Stm (2019), LEXF3/Stm (2020), LL/MavRrrcAek (2020), SR/JrHsd (2020), ACI/N (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2252 AgrOrtholog
BioCyc Gene G2FUF-4766 BioCyc
Ensembl Genes ENSRNOG00000057125 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000074328 ENTREZGENE
  ENSRNOP00000074328.1 UniProtKB/TrEMBL
  ENSRNOP00000075331 ENTREZGENE
  ENSRNOP00000075331.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000089417 ENTREZGENE
  ENSRNOT00000089417.2 UniProtKB/TrEMBL
  ENSRNOT00000090080 ENTREZGENE
  ENSRNOT00000090080.2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7937902 IMAGE-MGC_LOAD
InterPro DDR1/DDR2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FA58C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Galactose-bd-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser-Thr/Tyr_kinase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_rcpt_2_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25678 UniProtKB/TrEMBL
MGC_CLONE MGC:188383 IMAGE-MGC_LOAD
NCBI Gene 25678 ENTREZGENE
PANTHER PTHR24416:SF295 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam F5_F8_type_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pkinase_Tyr UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB DDR1 RGD
PhenoGen Ddr1 PhenoGen
PRINTS TYRKINASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE FA58C_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FA58C_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FA58C_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_TYR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RECEPTOR_TYR_KIN_II UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART FA58C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TyrKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49785 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC216923
UniProt A0A0G2K7S7 ENTREZGENE, UniProtKB/TrEMBL
  B2GVB6 ENTREZGENE, UniProtKB/TrEMBL
  DDR1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6MG19 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-25 Ddr1  discoidin domain receptor tyrosine kinase 1  Ddr1  discoidin domain receptor family, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2001-06-22 Cak  Neurotrophic tyrosine kinase, receptor, type 4 (cell adhesion kinase)      Symbol and Name withdrawn 67952 WITHDRAWN
2001-06-22 Ddr1  Discoidin domain receptor family, member 1      Symbol and Name updated to reflect Human and Mouse nomenclature 67952 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function tyrosine kinase 634720
gene_process may play an important role in the generation of the mammalian nervous system 634720