Wnk1 (WNK lysine deficient protein kinase 1) - Rat Genome Database

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Gene: Wnk1 (WNK lysine deficient protein kinase 1) Rattus norvegicus
Analyze
Symbol: Wnk1
Name: WNK lysine deficient protein kinase 1
RGD ID: 621141
Description: Enables several functions, including ATP binding activity; magnesium ion binding activity; and potassium channel inhibitor activity. Involved in several processes, including cellular response to calcium ion; negative regulation of sodium ion transport; and protein autophosphorylation. Located in cytosol and membrane. Biomarker of transient cerebral ischemia. Human ortholog(s) of this gene implicated in hereditary sensory and autonomic neuropathy type 2A; hereditary sensory neuropathy; hypertension; and pseudohypoaldosteronism. Orthologous to human WNK1 (WNK lysine deficient protein kinase 1); PARTICIPATES IN Erk5 MAPK signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: hereditary sensory neuropathy, type II; Hsn2; Prkwnk1; protein kinase lysine-deficient 1; protein kinase with no lysine 1; protein kinase, lysine deficient 1; protein kinase, lysine-deficient 1; serine/threonine-protein kinase WNK1
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
mRatBN7.24153,128,334 - 153,253,905 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl4153,128,334 - 153,253,905 (-)Ensembl
Rnor_6.04152,452,211 - 152,578,469 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4152,452,848 - 152,578,446 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04219,537,467 - 219,662,981 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44156,297,841 - 156,421,820 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14156,542,681 - 156,666,661 (-)NCBI
Celera4141,980,237 - 142,105,859 (-)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-trinitrotoluene  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
6-propyl-2-thiouracil  (EXP)
acetazolamide  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP)
bisphenol F  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
choline  (ISO)
cisplatin  (ISO)
cyclosporin A  (EXP)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
gentamycin  (EXP)
hydrogen cyanide  (ISO)
indometacin  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
methapyrilene  (EXP)
methimazole  (EXP)
methylmercury chloride  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
phenobarbital  (ISO)
potassium cyanide  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
tamibarotene  (ISO)
testosterone enanthate  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
tungsten  (ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IBA,IDA,ISO)
cytosol  (IBA,IDA,ISO)
membrane  (IDA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Bhuiyan MIH, etal., J Cereb Blood Flow Metab. 2017 Aug;37(8):2780-2794. doi: 10.1177/0271678X16675368. Epub 2016 Jan 1.
2. Cope G, etal., J Am Soc Nephrol. 2006 Jul;17(7):1867-74. Epub 2006 Jun 14.
3. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Lee BH, etal., Mol Cell. 2004 Sep 10;15(5):741-51.
5. MGD data from the GO Consortium
6. NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. OMIM Disease Annotation Pipeline
8. Piala AT, etal., Sci Signal. 2014 May 6;7(324):ra41. doi: 10.1126/scisignal.2005050.
9. RGD automated data pipeline
10. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. RGD automated import pipeline for gene-chemical interactions
12. San-Cristobal P, etal., Am J Nephrol. 2008 Jun 12;28(5):860-870.
13. Subramanya AR, etal., Am J Physiol Renal Physiol. 2006 Mar;290(3):F619-24. Epub 2005 Oct 4.
14. Tobin MD, etal., Circulation. 2005 Nov 29;112(22):3423-9. Epub 2005 Nov 21.
15. Vitari AC, etal., Biochem J. 2005 Oct 1;391(Pt 1):17-24.
16. Vorontsova I, etal., Invest Ophthalmol Vis Sci. 2014 Dec 16;56(1):310-21. doi: 10.1167/iovs.14-15911.
17. Wang X and Tournier C, Cell Signal. 2006 Jun;18(6):753-60. Epub 2006 Jan 6.
18. Wang Z, etal., Biochem Biophys Res Commun. 2004 May 7;317(3):939-44.
19. Wilson FH, etal., Science. 2001 Aug 10;293(5532):1107-12.
20. Xu B, etal., J Biol Chem 2000 Jun 2;275(22):16795-801.
21. Yang CL, etal., J Clin Invest 2003 Apr;111(7):1039-45.
Additional References at PubMed
PMID:10660600   PMID:12374799   PMID:14610273   PMID:15057822   PMID:15060842   PMID:15242606   PMID:15583131   PMID:16428287   PMID:16669787   PMID:17194447   PMID:17673510   PMID:18521183  
PMID:19389623   PMID:19644017   PMID:20525693   PMID:21317537   PMID:23376100   PMID:23797875   PMID:25749374   PMID:26126716   PMID:27400149   PMID:27782176   PMID:31085334   PMID:31561038  
PMID:32314908  


Genomics

Candidate Gene Status
Wnk1 is a candidate Gene for QTL Bp116
Comparative Map Data
Wnk1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24153,128,334 - 153,253,905 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl4153,128,334 - 153,253,905 (-)Ensembl
Rnor_6.04152,452,211 - 152,578,469 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4152,452,848 - 152,578,446 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04219,537,467 - 219,662,981 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44156,297,841 - 156,421,820 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14156,542,681 - 156,666,661 (-)NCBI
Celera4141,980,237 - 142,105,859 (-)NCBICelera
Cytogenetic Map4q42NCBI
WNK1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl12752,579 - 911,452 (+)EnsemblGRCh38hg38GRCh38
GRCh3812752,579 - 911,452 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3712861,745 - 1,020,618 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3612732,486 - 890,879 (+)NCBINCBI36hg18NCBI36
Build 3412732,992 - 888,219NCBI
Celera122,468,382 - 2,626,915 (+)NCBI
Cytogenetic Map12p13.33NCBI
HuRef12714,669 - 871,790 (+)NCBIHuRef
CHM1_112861,230 - 1,019,755 (+)NCBICHM1_1
Wnk1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396119,900,930 - 120,015,659 (-)NCBIGRCm39mm39
GRCm39 Ensembl6119,900,930 - 120,015,633 (-)Ensembl
GRCm386119,923,969 - 120,038,695 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6119,923,969 - 120,038,672 (-)EnsemblGRCm38mm10GRCm38
MGSCv376119,873,987 - 119,988,673 (-)NCBIGRCm37mm9NCBIm37
MGSCv366119,889,957 - 120,003,398 (-)NCBImm8
Celera6121,760,900 - 121,876,945 (-)NCBICelera
Cytogenetic Map6F1NCBI
Wnk1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554546,228,492 - 6,358,637 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554546,228,492 - 6,358,690 (-)NCBIChiLan1.0ChiLan1.0
WNK1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.112791,153 - 945,216 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12791,153 - 944,602 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v012825,659 - 985,016 (+)NCBIMhudiblu_PPA_v0panPan3
WNK1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12742,764,184 - 42,914,591 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2742,765,181 - 42,912,806 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha273,768,749 - 3,918,144 (-)NCBI
ROS_Cfam_1.02743,125,909 - 43,275,644 (+)NCBI
ROS_Cfam_1.0 Ensembl2743,125,048 - 43,275,641 (+)Ensembl
UMICH_Zoey_3.12743,064,974 - 43,214,364 (+)NCBI
UNSW_CanFamBas_1.02743,036,519 - 43,186,218 (+)NCBI
UU_Cfam_GSD_1.0273,127,998 - 3,277,800 (-)NCBI
Wnk1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945108,114,216 - 108,250,464 (-)NCBI
SpeTri2.0NW_004936606933,637 - 1,069,885 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
WNK1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl568,001,104 - 68,140,757 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1568,000,792 - 68,142,533 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2570,264,470 - 70,408,519 (+)NCBISscrofa10.2Sscrofa10.2susScr3
WNK1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111736,668 - 893,404 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl11737,590 - 890,762 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660637,446,465 - 7,603,119 (-)NCBIVero_WHO_p1.0
Wnk1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247358,987,390 - 9,122,277 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D4Rat64  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24153,173,847 - 153,173,999 (+)MAPPERmRatBN7.2
Rnor_6.04152,498,361 - 152,498,510NCBIRnor6.0
Rnor_5.04219,582,980 - 219,583,129UniSTSRnor5.0
RGSC_v3.44156,341,724 - 156,341,874RGDRGSC3.4
RGSC_v3.44156,341,725 - 156,341,874UniSTSRGSC3.4
RGSC_v3.14156,586,566 - 156,586,715RGD
Celera4142,025,745 - 142,025,894UniSTS
RH 3.4 Map4983.1UniSTS
RH 3.4 Map4983.1RGD
RH 2.0 Map4974.6RGD
SHRSP x BN Map477.0299RGD
Cytogenetic Map4q42UniSTS
RH143180  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24153,164,435 - 153,164,536 (+)MAPPERmRatBN7.2
Rnor_6.04152,488,949 - 152,489,049NCBIRnor6.0
Rnor_5.04219,573,568 - 219,573,668UniSTSRnor5.0
RGSC_v3.44156,332,313 - 156,332,413UniSTSRGSC3.4
Celera4142,016,333 - 142,016,433UniSTS
RH 3.4 Map4983.2UniSTS
Cytogenetic Map4q42UniSTS
AU047215  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24153,134,671 - 153,134,880 (+)MAPPERmRatBN7.2
Rnor_6.04152,459,186 - 152,459,394NCBIRnor6.0
Rnor_5.04219,543,805 - 219,544,013UniSTSRnor5.0
RGSC_v3.44156,302,549 - 156,302,757UniSTSRGSC3.4
Celera4141,986,566 - 141,986,774UniSTS
Cytogenetic Map4q42UniSTS
RH135198  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24153,137,553 - 153,137,755 (+)MAPPERmRatBN7.2
Rnor_6.04152,462,068 - 152,462,269NCBIRnor6.0
Rnor_5.04219,546,687 - 219,546,888UniSTSRnor5.0
RGSC_v3.44156,305,431 - 156,305,632UniSTSRGSC3.4
Celera4141,989,448 - 141,989,649UniSTS
RH 3.4 Map4987.3UniSTS
Cytogenetic Map4q42UniSTS
RH140646  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24153,253,583 - 153,253,788 (+)MAPPERmRatBN7.2
Rnor_6.04152,578,082 - 152,578,286NCBIRnor6.0
Rnor_5.04219,662,660 - 219,662,864UniSTSRnor5.0
RGSC_v3.44156,421,499 - 156,421,703UniSTSRGSC3.4
Celera4142,105,538 - 142,105,742UniSTS
RH 3.4 Map4981.9UniSTS
Cytogenetic Map4q42UniSTS
D8S281  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24153,162,583 - 153,162,986 (+)MAPPERmRatBN7.2
mRatBN7.21045,541,510 - 45,542,217 (+)MAPPERmRatBN7.2
Rnor_6.01047,115,891 - 47,116,597NCBIRnor6.0
Rnor_6.04152,487,097 - 152,487,499NCBIRnor6.0
Rnor_5.01046,889,367 - 46,890,073UniSTSRnor5.0
Rnor_5.04219,571,716 - 219,572,118UniSTSRnor5.0
RGSC_v3.41047,008,921 - 47,009,627UniSTSRGSC3.4
RGSC_v3.44156,330,460 - 156,330,863UniSTSRGSC3.4
Celera1044,796,451 - 44,797,157UniSTS
Celera4142,014,481 - 142,014,883UniSTS
Cytogenetic Map4q42UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61446Coreg2Compensatory renal growth QTL 23.5kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)4148423102157580971Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4119428175157578333Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1581574Eae20Experimental allergic encephalomyelitis QTL 207.8nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)4153031106158841762Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4109827074154827074Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478760Anxrr45Anxiety related response QTL 450.06717locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
6478763Anxrr46Anxiety related response QTL 460.07428locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4124778595169778595Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4109827074154827074Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4114627026159627026Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4147278504167139601Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:825
Count of miRNA genes:260
Interacting mature miRNAs:338
Transcripts:ENSRNOT00000013355, ENSRNOT00000013621
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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001002823 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001199095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_053794 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763201 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763203 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763205 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763207 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763211 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763212 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592384 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592385 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592386 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592387 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592388 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592389 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592390 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592391 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592392 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106921 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106924 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106925 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106927 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106928 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106929 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106930 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106932 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106938 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106941 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC106348 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC106932 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF227741 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BK004106 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ177457 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000149 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000013355   ⟹   ENSRNOP00000013355
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4153,128,334 - 153,253,905 (-)Ensembl
Rnor_6.0 Ensembl4152,452,848 - 152,578,403 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000013621   ⟹   ENSRNOP00000013622
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4153,128,334 - 153,253,905 (-)Ensembl
Rnor_6.0 Ensembl4152,452,848 - 152,578,403 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000079513   ⟹   ENSRNOP00000072554
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4153,128,334 - 153,253,905 (-)Ensembl
Rnor_6.0 Ensembl4152,455,224 - 152,578,446 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000080788   ⟹   ENSRNOP00000072173
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4153,128,334 - 153,253,905 (-)Ensembl
Rnor_6.0 Ensembl4152,452,848 - 152,578,403 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000109428   ⟹   ENSRNOP00000089664
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4153,128,334 - 153,253,905 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000111379   ⟹   ENSRNOP00000097067
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4153,128,334 - 153,253,905 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113392   ⟹   ENSRNOP00000077765
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4153,128,334 - 153,253,905 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000120316   ⟹   ENSRNOP00000080872
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4153,128,334 - 153,253,905 (-)Ensembl
RefSeq Acc Id: NM_001002823   ⟹   NP_001002823
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
Rnor_6.04152,452,848 - 152,578,403 (-)NCBI
Rnor_5.04219,537,467 - 219,662,981 (-)NCBI
RGSC_v3.44156,332,543 - 156,333,847 (-)RGD
Celera4141,980,237 - 142,105,859 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001199095   ⟹   NP_001186024
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
Rnor_6.04152,452,848 - 152,578,403 (-)NCBI
Rnor_5.04219,537,467 - 219,662,981 (-)NCBI
Celera4141,980,237 - 142,105,859 (-)NCBI
Sequence:
RefSeq Acc Id: NM_053794   ⟹   NP_446246
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
Rnor_6.04152,452,848 - 152,578,403 (-)NCBI
Rnor_5.04219,537,467 - 219,662,981 (-)NCBI
RGSC_v3.44156,297,841 - 156,421,820 (-)RGD
Celera4141,980,237 - 142,105,859 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763201   ⟹   XP_008761423
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
Rnor_6.04152,452,848 - 152,578,469 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763207   ⟹   XP_008761429
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,130,761 - 153,253,740 (-)NCBI
Rnor_6.04152,452,848 - 152,578,469 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763212   ⟹   XP_008761434
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
Rnor_6.04152,452,848 - 152,578,469 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039106921   ⟹   XP_038962849
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106922   ⟹   XP_038962850
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106924   ⟹   XP_038962852
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106925   ⟹   XP_038962853
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106926   ⟹   XP_038962854
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106927   ⟹   XP_038962855
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106928   ⟹   XP_038962856
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106929   ⟹   XP_038962857
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,131,645 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106930   ⟹   XP_038962858
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,131,645 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106931   ⟹   XP_038962859
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106932   ⟹   XP_038962860
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106933   ⟹   XP_038962861
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,131,645 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106935   ⟹   XP_038962863
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106936   ⟹   XP_038962864
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106937   ⟹   XP_038962865
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106938   ⟹   XP_038962866
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106939   ⟹   XP_038962867
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
RefSeq Acc Id: XM_039106940   ⟹   XP_038962868
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,170,808 (-)NCBI
RefSeq Acc Id: XM_039106941   ⟹   XP_038962869
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24153,128,334 - 153,253,905 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001002823 (Get FASTA)   NCBI Sequence Viewer  
  NP_001186024 (Get FASTA)   NCBI Sequence Viewer  
  NP_446246 (Get FASTA)   NCBI Sequence Viewer  
  XP_008761423 (Get FASTA)   NCBI Sequence Viewer  
  XP_008761429 (Get FASTA)   NCBI Sequence Viewer  
  XP_008761434 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962849 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962850 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962852 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962853 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962854 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962855 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962856 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962857 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962858 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962859 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962860 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962861 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962863 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962864 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962865 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962866 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962867 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962868 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962869 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF74258 (Get FASTA)   NCBI Sequence Viewer  
  ABA02202 (Get FASTA)   NCBI Sequence Viewer  
  DAA04492 (Get FASTA)   NCBI Sequence Viewer  
  EDM02045 (Get FASTA)   NCBI Sequence Viewer  
  EDM02046 (Get FASTA)   NCBI Sequence Viewer  
  Q9JIH7 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446246   ⟸   NM_053794
- Peptide Label: isoform 3
- UniProtKB: Q9JIH7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001002823   ⟸   NM_001002823
- Peptide Label: isoform 1
- UniProtKB: Q9JIH7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001186024   ⟸   NM_001199095
- Peptide Label: isoform 2
- UniProtKB: Q9JIH7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008761434   ⟸   XM_008763212
- Peptide Label: isoform X21
- Sequence:
RefSeq Acc Id: XP_008761429   ⟸   XM_008763207
- Peptide Label: isoform X19
- Sequence:
RefSeq Acc Id: XP_008761423   ⟸   XM_008763201
- Peptide Label: isoform X17
- Sequence:
RefSeq Acc Id: ENSRNOP00000072173   ⟸   ENSRNOT00000080788
RefSeq Acc Id: ENSRNOP00000072554   ⟸   ENSRNOT00000079513
RefSeq Acc Id: ENSRNOP00000013622   ⟸   ENSRNOT00000013621
RefSeq Acc Id: ENSRNOP00000013355   ⟸   ENSRNOT00000013355
RefSeq Acc Id: XP_038962867   ⟸   XM_039106939
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038962869   ⟸   XM_039106941
- Peptide Label: isoform X22
RefSeq Acc Id: XP_038962866   ⟸   XM_039106938
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038962864   ⟸   XM_039106936
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038962860   ⟸   XM_039106932
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038962850   ⟸   XM_039106922
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038962865   ⟸   XM_039106937
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038962863   ⟸   XM_039106935
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038962859   ⟸   XM_039106931
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038962856   ⟸   XM_039106928
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038962853   ⟸   XM_039106925
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038962855   ⟸   XM_039106927
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038962854   ⟸   XM_039106926
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038962852   ⟸   XM_039106924
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038962849   ⟸   XM_039106921
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038962868   ⟸   XM_039106940
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038962861   ⟸   XM_039106933
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038962858   ⟸   XM_039106930
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038962857   ⟸   XM_039106929
- Peptide Label: isoform X8
RefSeq Acc Id: ENSRNOP00000097067   ⟸   ENSRNOT00000111379
RefSeq Acc Id: ENSRNOP00000080872   ⟸   ENSRNOT00000120316
RefSeq Acc Id: ENSRNOP00000089664   ⟸   ENSRNOT00000109428
RefSeq Acc Id: ENSRNOP00000077765   ⟸   ENSRNOT00000113392
Protein Domains
Protein kinase

Transcriptome

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


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)
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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
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)
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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)
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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
F344/Stm (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
FHH/EurMcwi (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
FHH/EurMcwi (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)
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)
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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)
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)
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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
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)
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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)
GK/FarMcwi (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
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)
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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
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)
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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
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)
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
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)
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
MNS/Gib (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
MR/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
MR/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
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)
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
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)
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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHR/OlalpcvMcwi (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
SHRSP/A3NCrl (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
SHRSP/Gcrc (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
SR/JrHsd (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
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)
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
WKY/Gcrc (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
WKY/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
WKY/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
WKY/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
WKY/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
WKY/NHsd (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
WN/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
WN/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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
4 152475524 152475525 G T snv BN/SsN (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621141 AgrOrtholog
Ensembl Genes ENSRNOG00000009956 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013355 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000013622 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000072173 UniProtKB/Swiss-Prot
  ENSRNOP00000072554 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000077765 ENTREZGENE
  ENSRNOP00000080872 ENTREZGENE
  ENSRNOP00000089664 ENTREZGENE
  ENSRNOP00000097067 ENTREZGENE
Ensembl Transcript ENSRNOT00000013355 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000013621 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000079513 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000080788 UniProtKB/Swiss-Prot
  ENSRNOT00000109428 ENTREZGENE
  ENSRNOT00000111379 ENTREZGENE
  ENSRNOT00000113392 ENTREZGENE
  ENSRNOT00000120316 ENTREZGENE
InterPro Kinase-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kinase_OSR1/WNK_CCT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
KEGG Report rno:116477 UniProtKB/Swiss-Prot
NCBI Gene 116477 ENTREZGENE
Pfam OSR1_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pkinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Wnk1 PhenoGen
PROSITE PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART S_TKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K3A0_RAT UniProtKB/TrEMBL
  Q9JIH7 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q3S2I2 UniProtKB/Swiss-Prot
  Q6IFS7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-05-13 Wnk1  WNK lysine deficient protein kinase 1  Hsn2  hereditary sensory neuropathy, type II  Data Merged 737654 APPROVED
2008-02-19 Wnk1  WNK lysine deficient protein kinase 1  Prkwnk1  protein kinase, lysine deficient 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-02-14 Hsn2  hereditary sensory neuropathy, type II      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-02-26 Prkwnk1  protein kinase, lysine deficient 1      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Prkwnk1  protein kinase, lysine deficient 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease mutation of the human homolog is a cause of pseudohypoaldosteronism type II (PHAII) 1299306
gene_domains contains a small N-terminal domain followed by the kinase domain and a long C-terminal tail 633747
gene_protein 2126 amino acids and 230 kDa 633747