Oprk1 (opioid receptor, kappa 1) - Rat Genome Database

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Gene: Oprk1 (opioid receptor, kappa 1) Rattus norvegicus
Analyze
Symbol: Oprk1
Name: opioid receptor, kappa 1
RGD ID: 69426
Description: Enables receptor serine/threonine kinase binding activity. Involved in several processes, including conditioned place preference; positive regulation of ion transport; and response to alkaloid. Located in several cellular components, including axon terminus; dendrite; and perikaryon. Is integral component of presynaptic membrane and integral component of synaptic vesicle membrane. Is integral component of postsynaptic membrane. Used to study heroin dependence; myocardial infarction; and withdrawal disorder. Orthologous to human OPRK1 (opioid receptor kappa 1); PARTICIPATES IN nalbuphine pharmacodynamics pathway; INTERACTS WITH (D-Ala(2)-mephe(4)-gly-ol(5))enkephalin; (R)-noradrenaline; (R,R)-tramadol.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: K-OR-1; kappa-type opioid receptor; KOR-1
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
mRatBN7.2513,860,016 - 13,877,823 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl513,860,021 - 13,877,823 (-)Ensembl
Rnor_6.0513,742,655 - 13,760,460 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl513,744,658 - 13,760,305 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0518,519,763 - 18,534,188 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4514,040,848 - 14,055,273 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1514,037,659 - 14,055,460 (-)NCBI
Celera513,240,420 - 13,258,214 (-)NCBICelera
Cytogenetic Map5q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (ISO)
(D-Ala(2)-mephe(4)-gly-ol(5))enkephalin  (EXP)
(R)-noradrenaline  (EXP)
(R,R)-tramadol  (EXP)
(S)-nicotine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrobenzenesulfonic acid  (ISO)
2-naphthylamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acetylmethadol  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
arsenite(3-)  (ISO)
Bardoxolone methyl  (ISO)
benzo[a]pyrene  (EXP,ISO)
bisphenol A  (EXP)
bisphenol F  (ISO)
buprenorphine  (EXP,ISO)
butorphanol  (EXP)
cadmium atom  (EXP)
cadmium dichloride  (EXP)
celastrol  (ISO)
cocaine  (EXP,ISO)
codeine  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
cycloheximide  (ISO)
dextran sulfate  (ISO)
dextromethorphan  (EXP)
dextropropoxyphene  (EXP)
dextrorphan  (EXP)
dibutyl phthalate  (EXP)
dichlorine  (EXP)
dopamine  (EXP)
dorsomorphin  (ISO)
DPDPE  (EXP)
dynorphin A  (EXP,ISO)
entinostat  (ISO)
ethanol  (ISO)
Ethylketocyclazocine  (EXP)
fenvalerate  (EXP)
folic acid  (ISO)
fomepizole  (ISO)
gedunin  (ISO)
hydrocodone  (EXP)
Levallorphan  (EXP)
Levorphanol  (EXP)
magnesium atom  (EXP)
manganese atom  (EXP)
manganese(0)  (EXP)
mercury atom  (EXP)
mercury(0)  (EXP)
methadone  (EXP)
methotrexate  (ISO)
methylmercury chloride  (ISO)
Mitragynine  (ISO)
morphine  (EXP,ISO)
Nalmefene  (ISO)
naloxone  (EXP)
naltrexone  (EXP)
nicotine  (ISO)
Norbinaltorphimine  (EXP,ISO)
oxycodone  (EXP)
ozone  (EXP,ISO)
panobinostat  (ISO)
pentetrazol  (ISO)
picrotoxin  (EXP)
progesterone  (ISO)
SB 431542  (ISO)
serotonin  (EXP)
tapentadol  (EXP)
thioglycolic acid  (EXP)
titanium dioxide  (ISO)
tramadol  (EXP)
trichostatin A  (ISO)
U50488  (ISO)
U69593  (EXP,ISO)
valproic acid  (EXP,ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Anderson RI, etal., Neuroscience. 2013 Sep 26;249:214-22. doi: 10.1016/j.neuroscience.2012.12.028. Epub 2012 Dec 29.
2. Appleyard SM, etal., J Biol Chem. 2000 Dec 8;275(49):38281-5.
3. Bruchas MR, etal., J Biol Chem. 2006 Jun 30;281(26):18081-9. Epub 2006 Apr 28.
4. Chakrabarti S, etal., Proc Natl Acad Sci U S A. 2010 Nov 16;107(46):20115-9. doi: 10.1073/pnas.1009923107. Epub 2010 Nov 1.
5. Chen X, etal., Biochem Biophys Res Commun. 2017 Jan 22;482(4):658-664. doi: 10.1016/j.bbrc.2016.11.090. Epub 2016 Nov 16.
6. Chen Y, etal., Biochem J 1993 Nov 1;295 ( Pt 3):625-8.
7. Drake CT, etal., J Comp Neurol. 2007 Jan 20;500(3):465-76.
8. Feng Y, etal., Exp Physiol. 2012 May;97(5):651-62. doi: 10.1113/expphysiol.2011.063131. Epub 2012 Feb 15.
9. Fuentealba JA, etal., Synapse. 2007 Sep;61(9):771-7.
10. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
11. GOA data from the GO Consortium
12. Groblewski PA, etal., Addict Biol. 2015 Mar;20(2):297-301. doi: 10.1111/adb.12123. Epub 2014 Feb 15.
13. Jarosz PA Biol Res Nurs. 2007 Apr;8(4):294-9.
14. Jolivalt CG, etal., Diabetologia. 2006 Nov;49(11):2775-85. Epub 2006 Aug 19.
15. Joshi SK, etal., J Neurosci. 2000 Aug 1;20(15):5874-9.
16. Lee JW, etal., J Neurochem. 1998 May;70(5):2203-11.
17. Leventhal L, etal., J Pharmacol Exp Ther. 1998 Nov;287(2):538-44.
18. Li S, etal., Biochem J 1993 Nov 1;295 ( Pt 3):629-33.
19. McLaughlin JP, etal., J Biol Chem. 2003 Sep 5;278(36):34631-40. Epub 2003 Jun 18.
20. Meng F, etal., Proc Natl Acad Sci U S A 1993 Nov 1;90(21):9954-8.
21. MGD data from the GO Consortium
22. Minami M, etal., FEBS Lett 1993 Aug 30;329(3):291-5.
23. Mostari P, etal., J Reprod Dev. 2013;59(3):266-72. Epub 2013 Feb 8.
24. NCBI rat LocusLink and RefSeq merged data July 26, 2002
25. Nishi M, etal., FEBS Lett 1993 Sep 6;330(1):77-80.
26. Peart JN, etal., J Cardiovasc Pharmacol. 2004 Mar;43(3):410-5.
27. Pipeline to import SMPDB annotations from SMPDB into RGD
28. RGD automated data pipeline
29. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
30. RGD automated import pipeline for gene-chemical interactions
31. Rosin A, etal., Neurosci Lett. 1999 Nov 5;275(1):1-4.
32. Sahley TL, etal., Eur J Pharmacol. 2008 Feb 2;580(1-2):100-15. Epub 2007 Oct 25.
33. Schank JR, etal., Addict Biol. 2012 May;17(3):634-47. doi: 10.1111/j.1369-1600.2012.00455.x.
34. Seale SM, etal., Pharmacol Biochem Behav. 2012 Mar;101(1):77-84. doi: 10.1016/j.pbb.2011.12.006. Epub 2011 Dec 16.
35. Sedki F, etal., Addict Biol. 2014 Apr 13. doi: 10.1111/adb.12133.
36. Silva RM, etal., J Pharmacol Exp Ther. 2002 May;301(2):513-8.
37. Svingos AL, etal., Synapse. 2001 Dec 1;42(3):185-92. doi: 10.1002/syn.10005.
38. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
39. Teodorov E, etal., Braz J Med Biol Res. 2012 Oct;45(10):982-7. Epub 2012 May 31.
40. Teodorov E, etal., Life Sci. 2014 May 28;104(1-2):47-54. doi: 10.1016/j.lfs.2014.03.021. Epub 2014 Mar 31.
41. Teodorov E, etal., Neuroscience. 2006 Sep 1;141(3):1225-31. Epub 2006 Jun 6.
42. Tryoen-Toth P, etal., Brain Res Mol Brain Res. 1998 Mar 30;55(1):141-50.
43. Wu G, etal., J Ethnopharmacol. 2011 Jun 14;136(1):254-9. doi: 10.1016/j.jep.2011.04.041. Epub 2011 Apr 28.
44. Yakovlev AG, etal., J Biol Chem 1995 Mar 24;270(12):6421-4.
45. Yukhananov RY and Handa RJ, Neuroreport. 1996 Jul 8;7(10):1690-4.
Additional References at PubMed
PMID:7624359   PMID:8755601   PMID:9463367   PMID:9915326   PMID:10385123   PMID:11726686   PMID:12842289   PMID:12855366   PMID:14580956   PMID:15467355   PMID:15778854   PMID:15950775  
PMID:16130146   PMID:17167054   PMID:17980907   PMID:18500486   PMID:19009591   PMID:19217659   PMID:19462402   PMID:19545549   PMID:19567249   PMID:19924112   PMID:20435099   PMID:20574683  
PMID:20653037   PMID:21338616   PMID:21531393   PMID:21723305   PMID:21849544   PMID:22072818   PMID:22316281   PMID:22437504   PMID:22487769   PMID:22735633   PMID:22796630   PMID:23212453  
PMID:23402995   PMID:23838631   PMID:23877505   PMID:24219160   PMID:24957331   PMID:24978951   PMID:25013167   PMID:25641629   PMID:26086860   PMID:26635353   PMID:26860203   PMID:27226238  
PMID:27523794   PMID:27899527   PMID:28163104   PMID:28531297   PMID:28987634   PMID:32948219   PMID:33546289   PMID:34016793  


Genomics

Comparative Map Data
Oprk1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2513,860,016 - 13,877,823 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl513,860,021 - 13,877,823 (-)Ensembl
Rnor_6.0513,742,655 - 13,760,460 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl513,744,658 - 13,760,305 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0518,519,763 - 18,534,188 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4514,040,848 - 14,055,273 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1514,037,659 - 14,055,460 (-)NCBI
Celera513,240,420 - 13,258,214 (-)NCBICelera
Cytogenetic Map5q12NCBI
OPRK1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl853,225,724 - 53,251,637 (-)EnsemblGRCh38hg38GRCh38
GRCh38853,225,724 - 53,251,637 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37854,138,284 - 54,164,197 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36854,300,829 - 54,326,747 (-)NCBINCBI36hg18NCBI36
Build 34854,304,325 - 54,326,525NCBI
Celera850,129,111 - 50,155,030 (-)NCBI
Cytogenetic Map8q11.23NCBI
HuRef849,605,704 - 49,631,623 (-)NCBIHuRef
CHM1_1854,189,898 - 54,215,806 (-)NCBICHM1_1
Oprk1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915,658,673 - 5,676,357 (+)NCBIGRCm39mm39
GRCm39 Ensembl15,658,689 - 5,676,354 (+)Ensembl
GRCm3815,588,450 - 5,606,134 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15,588,466 - 5,606,131 (+)EnsemblGRCm38mm10GRCm38
MGSCv3715,578,574 - 5,592,947 (+)NCBIGRCm37mm9NCBIm37
MGSCv3615,578,574 - 5,592,947 (+)NCBImm8
Celera15,572,638 - 5,587,007 (+)NCBICelera
Cytogenetic Map1A1NCBI
cM Map11.89NCBI
Oprk1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545412,744,765 - 12,752,226 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545412,741,577 - 12,751,282 (-)NCBIChiLan1.0ChiLan1.0
OPRK1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1847,030,643 - 47,056,577 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl847,029,313 - 47,056,577 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0849,650,844 - 49,677,494 (-)NCBIMhudiblu_PPA_v0panPan3
OPRK1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1295,022,270 - 5,054,223 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl295,025,786 - 5,051,919 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha295,465,554 - 5,491,602 (-)NCBI
ROS_Cfam_1.0295,094,906 - 5,125,355 (-)NCBI
UMICH_Zoey_3.1295,025,124 - 5,051,183 (-)NCBI
UNSW_CanFamBas_1.0295,246,074 - 5,272,177 (-)NCBI
UU_Cfam_GSD_1.0295,327,765 - 5,353,862 (-)NCBI
Oprk1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530374,479,528 - 74,505,054 (+)NCBI
SpeTri2.0NW_004936496280,593 - 305,900 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
OPRK1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl477,399,198 - 77,426,522 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1477,399,298 - 77,429,025 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2484,469,581 - 84,499,310 (+)NCBISscrofa10.2Sscrofa10.2susScr3
OPRK1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1849,337,308 - 49,364,724 (-)NCBI
ChlSab1.1 Ensembl849,341,427 - 49,362,947 (-)Ensembl
Vero_WHO_p1.0NW_02366603992,601,556 - 92,627,383 (+)NCBI
Oprk1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247352,301,248 - 2,325,678 (+)NCBI

Position Markers
D5Wox26  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2513,861,313 - 13,861,507 (+)MAPPERmRatBN7.2
Rnor_6.0513,743,953 - 13,744,146NCBIRnor6.0
Rnor_5.0518,517,868 - 18,518,061UniSTSRnor5.0
RGSC_v3.4514,038,953 - 14,039,146UniSTSRGSC3.4
Celera513,241,718 - 13,241,911UniSTS
Cytogenetic Map5q12UniSTS
RH94595  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2513,860,572 - 13,860,771 (+)MAPPERmRatBN7.2
Rnor_6.0513,743,212 - 13,743,410NCBIRnor6.0
Rnor_5.0518,517,127 - 18,517,325UniSTSRnor5.0
RGSC_v3.4514,038,212 - 14,038,410UniSTSRGSC3.4
Celera513,240,977 - 13,241,175UniSTS
Cytogenetic Map5q12UniSTS
BF403255  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2513,860,189 - 13,860,395 (+)MAPPERmRatBN7.2
Rnor_6.0513,742,829 - 13,743,034NCBIRnor6.0
Rnor_5.0518,516,744 - 18,516,949UniSTSRnor5.0
RGSC_v3.4514,037,829 - 14,038,034UniSTSRGSC3.4
Celera513,240,594 - 13,240,799UniSTS
Cytogenetic Map5q12UniSTS
Oprk1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2513,867,261 - 13,867,388 (+)MAPPERmRatBN7.2
Rnor_6.0513,749,901 - 13,750,027NCBIRnor6.0
Rnor_5.0518,523,816 - 18,523,942UniSTSRnor5.0
RGSC_v3.4514,044,901 - 14,045,027UniSTSRGSC3.4
Celera513,247,666 - 13,247,792UniSTS
Cytogenetic Map5q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
2312562Pur18Proteinuria QTL 182.60.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5213896532656739Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5384401826141981Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5384401847869213Rat
61462Niddm10Non-insulin dependent diabetes mellitus QTL 103.90.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)5511215947171491Rat
631827Alc4Alcohol consumption QTL 43.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)5818750118616199Rat
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)5894822853948228Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51268928557689285Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:658
Count of miRNA genes:294
Interacting mature miRNAs:360
Transcripts:ENSRNOT00000010254
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

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 11
Low 16 7 7 72 18 19
Below cutoff 15 17 15 2 15 3 3 2 8 4 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000010254   ⟹   ENSRNOP00000010255
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl513,860,021 - 13,877,823 (-)Ensembl
Rnor_6.0 Ensembl513,744,658 - 13,760,305 (-)Ensembl
RefSeq Acc Id: NM_001318742   ⟹   NP_001305671
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2513,860,016 - 13,877,823 (-)NCBI
Rnor_6.0513,742,655 - 13,760,460 (-)NCBI
Celera513,240,420 - 13,258,214 (-)NCBI
Sequence:
RefSeq Acc Id: NM_017167   ⟹   NP_058863
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2513,860,016 - 13,877,823 (-)NCBI
Rnor_6.0513,742,655 - 13,760,460 (-)NCBI
Rnor_5.0518,519,763 - 18,534,188 (-)NCBI
RGSC_v3.4514,040,848 - 14,055,273 (-)RGD
Celera513,240,420 - 13,258,214 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039109359   ⟹   XP_038965287
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2513,860,016 - 13,877,486 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_058863   ⟸   NM_017167
- Peptide Label: isoform 1
- UniProtKB: P34975 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001305671   ⟸   NM_001318742
- Peptide Label: isoform 1x
- Sequence:
RefSeq Acc Id: ENSRNOP00000010255   ⟸   ENSRNOT00000010254
RefSeq Acc Id: XP_038965287   ⟸   XM_039109359
- Peptide Label: isoform X1

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)
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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
BBDP/Wor (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
BN-Lx/CubMcwi (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
BN/NHsdMcwi (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
BN/NHsdMcwi (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
BN/SsN (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
BN/SsN (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
BUF/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
BXH2/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
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)
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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
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)
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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
F344/DuCrl (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
F344/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
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)
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)
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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)
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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
HXB20/IpcvMcwi (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
HXB31/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
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)
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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
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)
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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
LEXF1A/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
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)
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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: 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)
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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: 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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
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)
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/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)
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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:69426 AgrOrtholog
Ensembl Genes ENSRNOG00000007647 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000010255 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000010254 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro GPCR_Rhodpsn UniProtKB/Swiss-Prot
  GPCR_Rhodpsn_7TM UniProtKB/Swiss-Prot
  Kappa_opi_rcpt UniProtKB/Swiss-Prot
  Opioid_rcpt UniProtKB/Swiss-Prot
KEGG Report rno:29335 UniProtKB/Swiss-Prot
NCBI Gene 29335 ENTREZGENE
Pfam 7tm_1 UniProtKB/Swiss-Prot
PhenoGen Oprk1 PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/Swiss-Prot
  KAPPAOPIOIDR UniProtKB/Swiss-Prot
  OPIOIDR UniProtKB/Swiss-Prot
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/Swiss-Prot
  G_PROTEIN_RECEP_F1_2 UniProtKB/Swiss-Prot
SMART 7TM_GPCR_Srsx UniProtKB/Swiss-Prot
TIGR TC206180
UniProt OPRK_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Oprk1  opioid receptor, kappa 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process involved in cardiovascular regulation, feeding behavior, fluid balance, modulation of anti-nociception, and temperature control 729017