Ddr2 (discoidin domain receptor tyrosine kinase 2) - Rat Genome Database

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Gene: Ddr2 (discoidin domain receptor tyrosine kinase 2) Rattus norvegicus
Analyze
Symbol: Ddr2
Name: discoidin domain receptor tyrosine kinase 2
RGD ID: 619855
Description: Enables collagen binding activity. Involved in several processes, including negative regulation of cell death; positive regulation of cell population proliferation; and positive regulation of collagen biosynthetic process. Located in apical plasma membrane. Used to study alcoholic liver cirrhosis. Biomarker of alcoholic liver cirrhosis. Human ortholog(s) of this gene implicated in gastrointestinal system cancer (multiple); osteoarthritis; and spondylometaepiphyseal dysplasia, short limb-hand type. Orthologous to human DDR2 (discoidin domain receptor tyrosine kinase 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 3-methylcholanthrene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: CD167b antigen; discoidin domain receptor family, member 2; discoidin domain-containing receptor 2; LOC360265; LOC685781; neurotrophic tyrosine kinase, receptor-related 3; receptor protein-tyrosine kinase TKT; similar to Discoidin domain-containing receptor 2 precursor (Discoidin domain receptor 2) (Receptor protein-tyrosine kinase TKT) (Tyrosine-protein kinase TYRO 10) (Neurotrophic tyrosine kinase, receptor-related 3) (CD167b antigen); Tyro10; tyrosine-protein kinase TYRO 10
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
mRatBN7.21382,193,623 - 82,318,229 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1382,195,463 - 82,317,363 (-)Ensembl
Rnor_6.01388,311,639 - 88,436,561 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1388,317,145 - 88,436,789 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01392,937,900 - 93,062,655 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41385,801,449 - 85,846,636 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11385,816,366 - 85,822,349 (-)NCBI
Celera1381,860,445 - 81,905,616 (-)NCBICelera
Cytogenetic Map13q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
17alpha-ethynylestradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-butoxyethanol  (ISO)
2-methylcholine  (ISO)
3-methylcholanthrene  (EXP)
3-Nitrobenzanthrone  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (EXP,ISO)
all-trans-retinoic acid  (ISO)
alpha-naphthoflavone  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aripiprazole  (EXP)
arsenous acid  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
carbon nanotube  (ISO)
chlordecone  (ISO)
chloroprene  (EXP)
chlorpyrifos  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
cocaine  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
cytarabine  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fenamidone  (ISO)
furan  (EXP)
geldanamycin  (ISO)
hydrogen peroxide  (ISO)
lead diacetate  (EXP)
Licochalcone B  (ISO)
lithium atom  (ISO)
lithium hydride  (ISO)
mercury dibromide  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
mifepristone  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
N-Nitrosopyrrolidine  (ISO)
nickel sulfate  (ISO)
O-methyleugenol  (ISO)
oxaliplatin  (EXP)
p-chloromercuribenzoic acid  (ISO)
PCB138  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP)
ponatinib  (ISO)
potassium dichromate  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tebuconazole  (ISO)
temozolomide  (ISO)
thapsigargin  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
triptonide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zidovudine  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
biomineral tissue development  (ISO)
cellular response to angiotensin  (IEP)
cellular response to hypoxia  (IEP)
cellular response to transforming growth factor beta stimulus  (IEP)
chondrocyte proliferation  (ISO)
collagen fibril organization  (ISO)
collagen-activated tyrosine kinase receptor signaling pathway  (ISO)
endochondral bone growth  (ISO)
negative regulation of apoptotic process  (IMP)
negative regulation of hydrogen peroxide-mediated programmed cell death  (IMP)
negative regulation of kinase activity  (IMP)
negative regulation of necrotic cell death  (IMP)
peptidyl-tyrosine phosphorylation  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of collagen biosynthetic process  (IDA,IMP)
positive regulation of DNA-binding transcription factor activity  (ISO)
positive regulation of ERK1 and ERK2 cascade  (IMP)
positive regulation of extracellular matrix disassembly  (ISO)
positive regulation of fibroblast migration  (ISO)
positive regulation of fibroblast proliferation  (ISO)
positive regulation of G1/S transition of mitotic cell cycle  (IMP)
positive regulation of hepatic stellate cell activation  (IMP)
positive regulation of hepatic stellate cell proliferation  (IMP)
positive regulation of kinase activity  (IBA)
positive regulation of neuron death  (IMP)
positive regulation of osteoblast differentiation  (ISO)
positive regulation of protein kinase activity  (ISO)
positive regulation of vascular associated smooth muscle cell migration  (IMP)
positive regulation of vascular associated smooth muscle cell proliferation  (IMP)
positive regulation of wound healing  (IMP)
protein autophosphorylation  (ISO)
regulation of bone mineralization  (ISO)
regulation of tissue remodeling  (ISO)
response to muscle stretch  (IEP)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA,ISO)

Cellular Component

References

References - curated
1. Agarwal G, etal., Biochemistry 2002 Sep 17;41(37):11091-8.
2. Badiola I, etal., Gut. 2012 Oct;61(10):1465-72. doi: 10.1136/gutjnl-2011-300810. Epub 2011 Nov 9.
3. Badiola I, etal., Oncol Rep. 2011 Oct;26(4):971-8. doi: 10.3892/or.2011.1356. Epub 2011 Jun 23.
4. Bhadriraju K, etal., Biomaterials. 2009 Dec;30(35):6687-94. doi: 10.1016/j.biomaterials.2009.08.036. Epub 2009 Sep 16.
5. Chen SC, etal., Biochem Biophys Res Commun. 2008 Oct 3;374(4):662-7. doi: 10.1016/j.bbrc.2008.07.092. Epub 2008 Jul 26.
6. Chua HH, etal., Head Neck. 2008 Apr;30(4):427-36. doi: 10.1002/hed.20724.
7. Ford CE, etal., Br J Cancer. 2007 Mar 12;96(5):808-14. doi: 10.1038/sj.bjc.6603614. Epub 2007 Feb 13.
8. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
9. George M, etal., J Mol Cell Cardiol. 2016 Jan;90:59-69. doi: 10.1016/j.yjmcc.2015.12.004. Epub 2015 Dec 8.
10. Hebron M, etal., J Neuroimmunol. 2017 Oct 15;311:1-9. doi: 10.1016/j.jneuroim.2017.07.009. Epub 2017 Aug 12.
11. Kurashige J, etal., Sci Rep. 2016 Mar 3;6:22371. doi: 10.1038/srep22371.
12. Lee R, etal., Nephron Exp Nephrol. 2004;97(2):e62-70.
13. Li D, etal., Pathol Oncol Res. 2019 Jan;25(1):157-167. doi: 10.1007/s12253-017-0314-3. Epub 2017 Oct 17.
14. Li J, etal., Exp Ther Med. 2019 Jul;18(1):99-104. doi: 10.3892/etm.2019.7554. Epub 2019 May 8.
15. Liu QQ, etal., Cell Biol Int. 2021 Sep;45(9):1906-1916. doi: 10.1002/cbin.11625. Epub 2021 May 16.
16. Luo Z, etal., PLoS One. 2013;8(2):e55860. doi: 10.1371/journal.pone.0055860. Epub 2013 Feb 7.
17. Miao L, etal., BMC Cancer. 2014 May 24;14:369. doi: 10.1186/1471-2407-14-369.
18. NCBI rat LocusLink and RefSeq merged data July 26, 2002
19. Nianhu L, etal., J Tradit Chin Med. 2015 Apr;35(2):192-6. doi: 10.1016/s0254-6272(15)30027-3.
20. OMIM Disease Annotation Pipeline
21. RGD automated data pipeline
22. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
23. RGD automated import pipeline for gene-chemical interactions
24. Sasaki H, etal., Oncol Lett. 2012 Jul;4(1):33-37. doi: 10.3892/ol.2012.684. Epub 2012 Apr 18.
25. Sasaki S, etal., Anticancer Res. 2017 May;37(5):2587-2591. doi: 10.21873/anticanres.11603.
26. Shyu KG, etal., Hypertension. 2005 Sep;46(3):614-21. doi: 10.1161/01.HYP.0000175811.79863.e2. Epub 2005 Aug 8.
27. Titus AS, etal., Am J Physiol Heart Circ Physiol. 2020 Jun 1;318(6):H1538-H1558. doi: 10.1152/ajpheart.00740.2019. Epub 2020 May 15.
28. Velmurugan BK, etal., Cancer Biomark. 2018;22(4):747-753. doi: 10.3233/CBM-181302.
29. Wang YG, etal., Dig Dis Sci. 2016 Aug;61(8):2272-2283. doi: 10.1007/s10620-016-4116-3. Epub 2016 Mar 24.
30. Xie B, etal., J Exp Clin Cancer Res. 2015 Sep 11;34:101. doi: 10.1186/s13046-015-0218-6.
31. Xu J, etal., Cancer Biol Ther. 2014 May;15(5):612-22. doi: 10.4161/cbt.28181. Epub 2014 Feb 20.
32. Zhang S, etal., J Pathol. 2014 Mar;232(4):436-48. doi: 10.1002/path.4311.
33. Zhang S, etal., Mol Med Rep. 2014 Sep;10(3):1543-8. doi: 10.3892/mmr.2014.2340. Epub 2014 Jun 17.
34. Zhang XH, etal., Arch Med Res. 2010 Nov;41(8):586-92. doi: 10.1016/j.arcmed.2010.10.010.
35. Zhao W, etal., Arthritis Rheumatol. 2014 Sep;66(9):2355-67. doi: 10.1002/art.38696.
Additional References at PubMed
PMID:8889548   PMID:9659899   PMID:9671320   PMID:11375938   PMID:11723120   PMID:12477932   PMID:15632090   PMID:16186108   PMID:16806867   PMID:18578992   PMID:19900459   PMID:20004161  
PMID:20564243   PMID:21423176   PMID:23376485   PMID:24018687   PMID:30449416   PMID:30922709   PMID:31699892  


Genomics

Comparative Map Data
Ddr2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21382,193,623 - 82,318,229 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1382,195,463 - 82,317,363 (-)Ensembl
Rnor_6.01388,311,639 - 88,436,561 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1388,317,145 - 88,436,789 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01392,937,900 - 93,062,655 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41385,801,449 - 85,846,636 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11385,816,366 - 85,822,349 (-)NCBI
Celera1381,860,445 - 81,905,616 (-)NCBICelera
Cytogenetic Map13q24NCBI
DDR2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1162,631,373 - 162,787,405 (+)EnsemblGRCh38hg38GRCh38
GRCh381162,630,863 - 162,787,405 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371162,600,653 - 162,757,195 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361160,868,852 - 161,016,879 (+)NCBINCBI36hg18NCBI36
Build 341159,333,917 - 159,481,869NCBI
Celera1135,705,279 - 135,854,329 (+)NCBI
Cytogenetic Map1q23.3NCBI
HuRef1133,847,299 - 133,995,362 (+)NCBIHuRef
CHM1_11164,024,739 - 164,172,823 (+)NCBICHM1_1
Ddr2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391169,799,874 - 169,938,525 (-)NCBIGRCm39mm39
GRCm39 Ensembl1169,799,876 - 169,938,331 (-)Ensembl
GRCm381169,972,307 - 170,110,836 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1169,972,307 - 170,110,762 (-)EnsemblGRCm38mm10GRCm38
MGSCv371171,902,438 - 172,019,075 (-)NCBIGRCm37mm9NCBIm37
MGSCv361171,814,321 - 171,947,234 (-)NCBImm8
Celera1172,414,199 - 172,531,584 (-)NCBICelera
Cytogenetic Map1H3NCBI
cM Map176.84NCBI
Ddr2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546213,584,724 - 13,642,968 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495546213,578,638 - 13,644,834 (-)NCBIChiLan1.0ChiLan1.0
DDR2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11141,845,361 - 141,997,082 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1141,932,158 - 141,990,766 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01138,048,730 - 138,200,426 (+)NCBIMhudiblu_PPA_v0panPan3
DDR2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13820,002,984 - 20,152,930 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3820,008,057 - 20,152,275 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3820,058,141 - 20,208,046 (-)NCBI
ROS_Cfam_1.03820,086,562 - 20,234,983 (-)NCBI
UMICH_Zoey_3.13820,061,517 - 20,211,219 (-)NCBI
UNSW_CanFamBas_1.03820,413,313 - 20,562,417 (-)NCBI
UU_Cfam_GSD_1.03820,704,566 - 20,854,433 (-)NCBI
Ddr2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244050588,484,022 - 8,632,611 (+)NCBI
SpeTri2.0NW_004936831799,948 - 946,139 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDR2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl487,756,168 - 87,911,375 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1487,749,738 - 87,911,818 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2495,474,605 - 95,564,964 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DDR2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1201,298,636 - 1,451,872 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl201,299,574 - 1,359,674 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666038314,909 - 469,563 (-)NCBIVero_WHO_p1.0
Ddr2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248261,225,217 - 1,255,889 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH130509  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21382,193,661 - 82,193,848 (+)MAPPERmRatBN7.2
Rnor_6.01388,311,678 - 88,311,864NCBIRnor6.0
Rnor_5.01392,937,939 - 92,938,125UniSTSRnor5.0
RGSC_v3.41385,796,722 - 85,796,908UniSTSRGSC3.4
Celera1381,855,718 - 81,855,904UniSTS
RH 3.4 Map13516.5UniSTS
Cytogenetic Map13q24UniSTS
AW495251  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21382,199,287 - 82,199,410 (+)MAPPERmRatBN7.2
Rnor_6.01388,317,304 - 88,317,426NCBIRnor6.0
Rnor_5.01392,943,565 - 92,943,687UniSTSRnor5.0
RGSC_v3.41385,802,348 - 85,802,470UniSTSRGSC3.4
Celera1381,861,344 - 81,861,466UniSTS
Cytogenetic Map13q24UniSTS
RH141613  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21382,199,040 - 82,199,241 (+)MAPPERmRatBN7.2
Rnor_6.01388,317,057 - 88,317,257NCBIRnor6.0
Rnor_5.01392,943,318 - 92,943,518UniSTSRnor5.0
RGSC_v3.41385,802,101 - 85,802,301UniSTSRGSC3.4
Celera1381,861,097 - 81,861,297UniSTS
RH 3.4 Map13516.6UniSTS
Cytogenetic Map13q24UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)135987440885581182Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)136906051986800898Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136906051986800898Rat
1300166Kidm6Kidney mass QTL 63.93kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)136906051986800898Rat
8655959Pur32Proteinuria QTL 328.4total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)137486211785581182Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:386
Count of miRNA genes:225
Interacting mature miRNAs:268
Transcripts:ENSRNOT00000003901
Prediction methods:Microtar, Miranda, 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 1 13 5 2 3 2 6 6 13 21 33 11 6
Low 2 30 37 24 16 24 2 5 61 14 8 2
Below cutoff 15 15 15

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_031764 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250227 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250228 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769761 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF016247 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC161961 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ202961 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ207033 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ781303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EV765307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EV770183 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EV772283 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000003901   ⟹   ENSRNOP00000003901
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1382,195,463 - 82,317,363 (-)Ensembl
Rnor_6.0 Ensembl1388,317,145 - 88,436,789 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000105822   ⟹   ENSRNOP00000092781
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1382,195,463 - 82,227,210 (-)Ensembl
RefSeq Acc Id: NM_031764   ⟹   NP_113952
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21382,198,389 - 82,243,540 (-)NCBI
Rnor_6.01388,316,405 - 88,361,682 (-)NCBI
Rnor_5.01392,937,900 - 93,062,655 (-)NCBI
RGSC_v3.41385,801,449 - 85,846,636 (-)RGD
Celera1381,860,445 - 81,905,616 (-)RGD
Sequence:
RefSeq Acc Id: XM_006250227   ⟹   XP_006250289
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21382,193,623 - 82,318,229 (-)NCBI
Rnor_6.01388,311,639 - 88,436,561 (-)NCBI
Rnor_5.01392,937,900 - 93,062,655 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006250228   ⟹   XP_006250290
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21382,198,389 - 82,317,130 (-)NCBI
Rnor_6.01388,311,639 - 88,435,797 (-)NCBI
Rnor_5.01392,937,900 - 93,062,655 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006250229   ⟹   XP_006250291
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21382,198,389 - 82,318,229 (-)NCBI
Rnor_6.01388,311,639 - 88,436,561 (-)NCBI
Rnor_5.01392,937,900 - 93,062,655 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769761   ⟹   XP_008767983
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21382,198,389 - 82,318,229 (-)NCBI
Rnor_6.01388,311,639 - 88,436,561 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769762   ⟹   XP_008767984
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21382,198,389 - 82,316,850 (-)NCBI
Rnor_6.01388,311,639 - 88,435,552 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_113952   ⟸   NM_031764
- Peptide Label: precursor
- UniProtKB: B1WC09 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250291   ⟸   XM_006250229
- Peptide Label: isoform X1
- UniProtKB: B1WC09 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250289   ⟸   XM_006250227
- Peptide Label: isoform X1
- UniProtKB: B1WC09 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250290   ⟸   XM_006250228
- Peptide Label: isoform X1
- UniProtKB: B1WC09 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008767983   ⟸   XM_008769761
- Peptide Label: isoform X1
- UniProtKB: B1WC09 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008767984   ⟸   XM_008769762
- Peptide Label: isoform X1
- UniProtKB: B1WC09 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000003901   ⟸   ENSRNOT00000003901
RefSeq Acc Id: ENSRNOP00000092781   ⟸   ENSRNOT00000105822
Protein Domains
F5/8 type C   Protein kinase

Transcriptome

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

Promoters
RGD ID:13698982
Promoter ID:EPDNEW_R9507
Type:multiple initiation site
Name:Ddr2_1
Description:discoidin domain receptor tyrosine kinase 2
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_6.01388,436,833 - 88,436,893EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
Sequenced By: MCW
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
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
Sequenced By: MCW
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
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
Sequenced By: MCW
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/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
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
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
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
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
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
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
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
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
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/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
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/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
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/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
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
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619855 AgrOrtholog
Ensembl Genes ENSRNOG00000002881 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000003901 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003901 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9027893 IMAGE-MGC_LOAD
InterPro Coagulation_fac_5/8-C_type_dom UniProtKB/TrEMBL
  DDR2 UniProtKB/TrEMBL
  Galactose-bd-like UniProtKB/TrEMBL
  Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Ser-Thr/Tyr-Pkinase UniProtKB/TrEMBL
  Tyr_kinase_cat_dom UniProtKB/TrEMBL
  Tyr_prot_kinase_AS UniProtKB/TrEMBL
  Tyr_prot_kinase_rcpt_2_CS UniProtKB/TrEMBL
KEGG Report rno:685781 UniProtKB/TrEMBL
MGC_CLONE MGC:187764 IMAGE-MGC_LOAD
NCBI Gene 685781 ENTREZGENE
PANTHER PTHR24416:SF295 UniProtKB/TrEMBL
Pfam F5_F8_type_C UniProtKB/TrEMBL
  Pkinase_Tyr UniProtKB/TrEMBL
PharmGKB DDR2 RGD
PhenoGen Ddr2 PhenoGen
PRINTS TYRKINASE UniProtKB/TrEMBL
PROSITE FA58C_1 UniProtKB/TrEMBL
  FA58C_2 UniProtKB/TrEMBL
  FA58C_3 UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_TYR UniProtKB/TrEMBL
  RECEPTOR_TYR_KIN_II UniProtKB/TrEMBL
SMART FA58C UniProtKB/TrEMBL
  TyrKc UniProtKB/TrEMBL
Superfamily-SCOP Gal_bind_like UniProtKB/TrEMBL
  Kinase_like UniProtKB/TrEMBL
UniProt B1WC09 ENTREZGENE, UniProtKB/TrEMBL
  F7EVN7_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-06-15 Ddr2  discoidin domain receptor tyrosine kinase 2  Ddr2_predicted  discoidin domain receptor family, member 2 (predicted)  Data Merged 1643240 APPROVED
2008-09-25 Ddr2  discoidin domain receptor tyrosine kinase 2  Ddr2  discoidin domain receptor family, member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-14 Ddr2  discoidin domain receptor family, member 2  LOC685781  similar to Discoidin domain-containing receptor 2 precursor (Discoidin domain receptor 2) (Receptor protein-tyrosine kinase TKT) (Tyrosine-protein kinase TYRO 10) (Neurotrophic tyrosine kinase, receptor-related 3) (CD167b antigen)  Data Merged 737654 APPROVED
2006-11-20 LOC685781  similar to Discoidin domain-containing receptor 2 precursor (Discoidin domain receptor 2) (Receptor protein-tyrosine kinase TKT) (Tyrosine-protein kinase TYRO 10) (Neurotrophic tyrosine kinase, receptor-related 3) (CD167b antigen)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 Ddr2  discoidin domain receptor family, member 2      Symbol and Name status set to approved 1299863 APPROVED
2005-01-12 Ddr2_predicted  discoidin domain receptor family, member 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED
2002-08-07 Ddr2  discoidin domain receptor family, member 2      Symbol and Name status set to provisional 70820 PROVISIONAL