Kcnk2 (potassium two pore domain channel subfamily K member 2) - Rat Genome Database

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Gene: Kcnk2 (potassium two pore domain channel subfamily K member 2) Rattus norvegicus
Analyze
Symbol: Kcnk2
Name: potassium two pore domain channel subfamily K member 2
RGD ID: 621448
Description: Enables outward rectifier potassium channel activity; potassium channel inhibitor activity; and potassium ion leak channel activity. Involved in several processes, including cochlea development; negative regulation of cardiac muscle cell proliferation; and positive regulation of cellular response to hypoxia. Located in several cellular components, including apical plasma membrane; astrocyte projection; and calyx of Held. Is integral component of plasma membrane. Used to study transient cerebral ischemia. Biomarker of brain ischemia; congestive heart failure; myocardial infarction; and transient cerebral ischemia. Orthologous to human KCNK2 (potassium two pore domain channel subfamily K member 2); INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: arachidonic acid sensitive tandem pore domain potassium channel; ion transport membrane protein; outward rectifying potassium channel protein TREK-1; potassium channel subfamily K member 2; potassium channel, subfamily K, member 2; potassium channel, two pore domain subfamily K, member 2; rTREK1d; stretch-activated potassium channel TREK-1; tandem-pore-domain potassium channel TREK-1; Trek-1; TREK-1 K(+) channel subunit; two pore domain potassium channel TREK-1; two pore potassium channel TPKC1
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
mRatBN7.213100,766,101 - 100,963,435 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl13100,766,113 - 100,963,435 (-)Ensembl
Rnor_6.013107,690,111 - 107,886,476 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13107,690,087 - 107,886,476 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013112,318,467 - 112,512,344 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413105,376,001 - 105,574,238 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.113105,665,411 - 105,705,891 (-)NCBI
Celera13100,255,787 - 100,450,992 (-)NCBICelera
Cytogenetic Map13q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
1. Alloui A, etal., EMBO J. 2006 Jun 7;25(11):2368-76. Epub 2006 May 4.
2. Azzalin A, etal., Biochem Biophys Res Commun. 2006 Jul 21;346(1):108-15. Epub 2006 May 24.
3. Bearzatto B, etal., Neuroreport. 2000 Apr 7;11(5):927-30.
4. Benoist D, etal., Prog Biophys Mol Biol. 2014 Aug;115(2-3):162-72. doi: 10.1016/j.pbiomolbio.2014.06.008. Epub 2014 Jul 9.
5. Bockenhauer D, etal., Nat Neurosci 2001 May;4(5):486-91.
6. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. GOA data from the GO Consortium
8. Gu W, etal., J Physiol 2002 Mar 15;539(Pt 3):657-68.
9. Hervieu GJ, etal., Neuroscience. 2001;103(4):899-919.
10. Heurteaux C, etal., EMBO J. 2004 Jul 7;23(13):2684-95. Epub 2004 Jun 3.
11. Heurteaux C, etal., Nat Neurosci. 2006 Sep;9(9):1134-41. Epub 2006 Aug 13.
12. Kanjhan R, etal., Neuroreport. 2004 Mar 1;15(3):437-41.
13. Kisselbach J, etal., Life Sci. 2012 Oct 5;91(11-12):377-83. doi: 10.1016/j.lfs.2012.08.011. Epub 2012 Aug 15.
14. Liu Y, etal., Neurochem Res. 2014 Sep;39(9):1797-808. doi: 10.1007/s11064-014-1390-3. Epub 2014 Jul 26.
15. Marsh B, etal., Mol Cell Neurosci. 2012 Mar;49(3):375-86. doi: 10.1016/j.mcn.2012.01.002. Epub 2012 Jan 16.
16. MGD data from the GO Consortium
17. NCBI rat LocusLink and RefSeq merged data July 26, 2002
18. Nicolas MT, etal., Brain Res. 2004 Aug 13;1017(1-2):46-52.
19. Pan YP, etal., Yao Xue Xue Bao. 2003 Oct;38(10):721-4.
20. Popper P, etal., Hear Res. 2008 Dec;246(1-2):1-8. doi: 10.1016/j.heares.2008.09.004. Epub 2008 Sep 20.
21. RGD automated data pipeline
22. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
23. RGD automated import pipeline for gene-chemical interactions
24. Rinne S, etal., Pflugers Arch. 2013 Nov 7.
25. Tan JH, etal., J Membr Biol 2002 Feb 1;185(3):201-7.
26. Terrenoire C, etal., Circ Res. 2001 Aug 17;89(4):336-42.
27. Tong L, etal., Br J Anaesth. 2014 Jul;113(1):157-67. doi: 10.1093/bja/aet338. Epub 2013 Oct 22.
28. Wang W, etal., J Cardiovasc Pharmacol. 2013 Apr;61(4):302-10. doi: 10.1097/FJC.0b013e318280c5a9.
29. Woo DH, etal., Cell. 2012 Sep 28;151(1):25-40. doi: 10.1016/j.cell.2012.09.005.
30. Wu X, etal., J Huazhong Univ Sci Technolog Med Sci. 2012 Dec;32(6):849-55. doi: 10.1007/s11596-012-1046-y. Epub 2012 Dec 28.
31. Xu X, etal., Brain Res Mol Brain Res. 2004 Jan 5;120(2):205-9.
32. Yang X, etal., J Cardiovasc Pharmacol. 2014 Aug;64(2):142-50. doi: 10.1097/FJC.0000000000000099.
33. Yin X, etal., Neurosci Lett. 2012 May 2;515(2):115-20. doi: 10.1016/j.neulet.2012.03.006. Epub 2012 Mar 10.
34. Zhao F, etal., J Huazhong Univ Sci Technolog Med Sci. 2007 Aug;27(4):385-7.
35. Zhao LN, etal., Can J Cardiol. 2011 Nov-Dec;27(6):826-33. doi: 10.1016/j.cjca.2011.01.013. Epub 2011 Jun 16.
36. Zhou M, etal., J Neurosci. 2009 Jul 1;29(26):8551-64. doi: 10.1523/JNEUROSCI.5784-08.2009.
Additional References at PubMed
PMID:11560940   PMID:15123558   PMID:16248991   PMID:17345093   PMID:17556656   PMID:18579077   PMID:19363137   PMID:19429069   PMID:20605797   PMID:21789545   PMID:21822218   PMID:22354168  
PMID:22726831   PMID:22895843   PMID:24402080   PMID:25539776   PMID:25675906   PMID:25778785   PMID:29462125   PMID:29736614   PMID:29980241   PMID:31091801   PMID:31630908   PMID:31959866  
PMID:33006141  


Genomics

Comparative Map Data
Kcnk2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.213100,766,101 - 100,963,435 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl13100,766,113 - 100,963,435 (-)Ensembl
Rnor_6.013107,690,111 - 107,886,476 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13107,690,087 - 107,886,476 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013112,318,467 - 112,512,344 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413105,376,001 - 105,574,238 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.113105,665,411 - 105,705,891 (-)NCBI
Celera13100,255,787 - 100,450,992 (-)NCBICelera
Cytogenetic Map13q26NCBI
KCNK2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1215,005,775 - 215,237,090 (+)EnsemblGRCh38hg38GRCh38
GRCh381215,002,920 - 215,237,093 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371215,178,885 - 215,410,433 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361213,245,508 - 213,477,059 (+)NCBINCBI36hg18NCBI36
Build 341211,645,030 - 211,797,553NCBI
Celera1188,402,753 - 188,634,228 (+)NCBI
Cytogenetic Map1q41NCBI
HuRef1185,853,513 - 186,084,965 (+)NCBIHuRef
CHM1_11216,451,204 - 216,682,774 (+)NCBICHM1_1
Kcnk2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391188,940,127 - 189,134,979 (-)NCBIGRCm39mm39
GRCm39 Ensembl1188,940,127 - 189,134,470 (-)Ensembl
GRCm381189,207,930 - 189,402,782 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1189,207,930 - 189,402,273 (-)EnsemblGRCm38mm10GRCm38
MGSCv371191,031,809 - 191,168,071 (-)NCBIGRCm37mm9NCBIm37
MGSCv361190,908,721 - 191,044,620 (-)NCBImm8
Celera1196,121,799 - 196,265,023 (-)NCBICelera
Cytogenetic Map1H6NCBI
Kcnk2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554062,791,803 - 2,975,322 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554062,793,493 - 2,975,322 (-)NCBIChiLan1.0ChiLan1.0
KCNK2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11195,431,036 - 195,660,681 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1195,430,994 - 195,662,840 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01190,576,180 - 190,807,367 (+)NCBIMhudiblu_PPA_v0panPan3
KCNK2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1712,893,654 - 13,092,319 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl712,894,149 - 13,090,110 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha712,470,423 - 12,670,630 (+)NCBI
ROS_Cfam_1.0712,747,271 - 12,810,022 (+)NCBI
UMICH_Zoey_3.1712,529,565 - 12,729,453 (+)NCBI
UNSW_CanFamBas_1.0712,634,038 - 12,833,989 (+)NCBI
UU_Cfam_GSD_1.0712,759,762 - 12,959,899 (+)NCBI
Kcnk2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934461,143,721 - 61,335,855 (-)NCBI
SpeTri2.0NW_0049366283,155,261 - 3,284,375 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KCNK2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9128,357,160 - 128,659,717 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19128,429,232 - 128,659,662 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29141,099,533 - 141,161,034 (-)NCBISscrofa10.2Sscrofa10.2susScr3
KCNK2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12514,341,147 - 14,570,982 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2514,340,123 - 14,487,420 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605514,803,316 - 15,034,481 (-)NCBIVero_WHO_p1.0
Kcnk2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477120,040,685 - 20,166,992 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D13Got97  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213100,787,568 - 100,787,768 (+)MAPPERmRatBN7.2
Rnor_6.013107,711,426 - 107,711,625NCBIRnor6.0
Rnor_5.013112,339,268 - 112,339,467UniSTSRnor5.0
RGSC_v3.413105,397,294 - 105,397,494RGDRGSC3.4
RGSC_v3.413105,397,295 - 105,397,494UniSTSRGSC3.4
RGSC_v3.113105,586,399 - 105,586,598RGD
Celera13100,277,138 - 100,277,337UniSTS
RH 3.4 Map13686.1UniSTS
RH 3.4 Map13686.1RGD
RH 2.0 Map13731.3RGD
Cytogenetic Map13q26UniSTS
RH129439  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213100,766,176 - 100,766,394 (+)MAPPERmRatBN7.2
Rnor_6.013107,690,187 - 107,690,404NCBIRnor6.0
Rnor_5.013112,318,539 - 112,318,756UniSTSRnor5.0
RGSC_v3.413105,376,067 - 105,376,284UniSTSRGSC3.4
Celera13100,255,853 - 100,256,070UniSTS
RH 3.4 Map13686.1UniSTS
Cytogenetic Map13q26UniSTS
RH130296  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213100,766,117 - 100,766,297 (+)MAPPERmRatBN7.2
Rnor_6.013107,690,128 - 107,690,307NCBIRnor6.0
Rnor_5.013112,318,480 - 112,318,659UniSTSRnor5.0
RGSC_v3.413105,376,008 - 105,376,187UniSTSRGSC3.4
Celera13100,255,794 - 100,255,973UniSTS
RH 3.4 Map13687.1UniSTS
Cytogenetic Map13q26UniSTS
RH144239  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213100,908,968 - 100,909,102 (+)MAPPERmRatBN7.2
Rnor_6.013107,832,259 - 107,832,392NCBIRnor6.0
Rnor_5.013112,458,148 - 112,458,281UniSTSRnor5.0
RGSC_v3.413105,518,375 - 105,518,508UniSTSRGSC3.4
Celera13100,397,007 - 100,397,140UniSTS
RH 3.4 Map13701.2UniSTS
Cytogenetic Map13q26UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:260
Count of miRNA genes:184
Interacting mature miRNAs:217
Transcripts:ENSRNOT00000003684
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 5 60 2
Low 3 38 22 6 8 6 7 9 14 20 37 9 7
Below cutoff 24 24 5 24 1 2 15 4 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000003684   ⟹   ENSRNOP00000003684
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13100,766,113 - 100,907,381 (-)Ensembl
Rnor_6.0 Ensembl13107,690,087 - 107,831,014 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000077282   ⟹   ENSRNOP00000068842
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13100,767,911 - 100,963,435 (-)Ensembl
Rnor_6.0 Ensembl13107,691,921 - 107,886,476 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103519   ⟹   ENSRNOP00000077148
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13100,767,911 - 100,908,274 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000107139   ⟹   ENSRNOP00000087071
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13100,767,911 - 100,907,559 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000111587   ⟹   ENSRNOP00000091791
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13100,767,911 - 100,963,435 (-)Ensembl
RefSeq Acc Id: NM_172041   ⟹   NP_742038
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213100,767,911 - 100,963,435 (-)NCBI
Rnor_6.013107,691,921 - 107,886,476 (-)NCBI
Rnor_5.013112,318,467 - 112,512,344 (-)NCBI
RGSC_v3.413105,376,001 - 105,574,238 (-)RGD
Celera13100,257,587 - 100,450,992 (-)NCBI
Sequence:
RefSeq Acc Id: NM_172042   ⟹   NP_742039
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213100,766,111 - 100,907,381 (-)NCBI
Rnor_6.013107,690,121 - 107,830,671 (-)NCBI
Rnor_5.013112,318,467 - 112,512,344 (-)NCBI
RGSC_v3.413105,376,001 - 105,574,238 (-)RGD
Celera13100,255,787 - 100,395,419 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006250433   ⟹   XP_006250495
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213100,766,101 - 100,908,494 (-)NCBI
Rnor_6.013107,690,111 - 107,831,808 (-)NCBI
Rnor_5.013112,318,467 - 112,512,344 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006250434   ⟹   XP_006250496
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213100,766,105 - 100,907,654 (-)NCBI
Rnor_6.013107,690,111 - 107,831,485 (-)NCBI
Rnor_5.013112,318,467 - 112,512,344 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_742039   ⟸   NM_172042
- Peptide Label: isoform 2
- UniProtKB: Q920B6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_742038   ⟸   NM_172041
- Peptide Label: isoform 1
- UniProtKB: Q920B6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006250495   ⟸   XM_006250433
- Peptide Label: isoform X1
- UniProtKB: Q920B6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006250496   ⟸   XM_006250434
- Peptide Label: isoform X2
- UniProtKB: Q920B6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000068842   ⟸   ENSRNOT00000077282
RefSeq Acc Id: ENSRNOP00000003684   ⟸   ENSRNOT00000003684
RefSeq Acc Id: ENSRNOP00000077148   ⟸   ENSRNOT00000103519
RefSeq Acc Id: ENSRNOP00000087071   ⟸   ENSRNOT00000107139
RefSeq Acc Id: ENSRNOP00000091791   ⟸   ENSRNOT00000111587

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)
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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
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)
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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
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)
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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
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)
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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
LEXF3/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
LEXF4/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
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)
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)
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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
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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:621448 AgrOrtholog
Ensembl Genes ENSRNOG00000002653 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000003684 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000068842 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000077148 ENTREZGENE
  ENSRNOP00000087071 ENTREZGENE
Ensembl Transcript ENSRNOT00000003684 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000077282 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000103519 ENTREZGENE
  ENSRNOT00000107139 ENTREZGENE
InterPro 2pore_dom_K_chnl UniProtKB/Swiss-Prot
  2pore_dom_K_chnl_TREK UniProtKB/Swiss-Prot
  K_chnl_dom UniProtKB/Swiss-Prot
KEGG Report rno:170899 UniProtKB/Swiss-Prot
NCBI Gene 170899 ENTREZGENE
Pfam Ion_trans_2 UniProtKB/Swiss-Prot
PhenoGen Kcnk2 PhenoGen
PRINTS 2POREKCHANEL UniProtKB/Swiss-Prot
  TREKCHANNEL UniProtKB/Swiss-Prot
UniProt KCNK2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A3QR52 UniProtKB/Swiss-Prot
  Q3MMY3 UniProtKB/Swiss-Prot
  Q5DNW4 UniProtKB/Swiss-Prot
  Q5DNW5 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Kcnk2  potassium two pore domain channel subfamily K member 2  Kcnk2  potassium channel, two pore domain subfamily K, member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-01-26 Kcnk2  potassium channel, two pore domain subfamily K, member 2  Kcnk2  potassium channel, subfamily K, member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Kcnk2  potassium channel, subfamily K, member 2      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Kcnk2  potassium channel, subfamily K, member 2      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_product member of the tandem pore family 633143
gene_regulation channel activated directly by ATP 633143