Prkg1 (protein kinase cGMP-dependent 1) - Rat Genome Database

Send us a Message



 Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper
Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Prkg1 (protein kinase cGMP-dependent 1) Rattus norvegicus
Analyze
Symbol: Prkg1
Name: protein kinase cGMP-dependent 1
RGD ID: 1587390
Description: Enables identical protein binding activity and mitogen-activated protein kinase p38 binding activity. Involved in several processes, including cell growth involved in cardiac muscle cell development; regulation of cellular biosynthetic process; and regulation of ion transport. Located in several cellular components, including Golgi apparatus; acrosomal vesicle; and nucleoplasm. Colocalizes with sarcolemma. Biomarker of allergic rhinitis; hypertension; hypogonadism; impotence; and obesity. Human ortholog(s) of this gene implicated in thoracic aortic aneurysm. Orthologous to human PRKG1 (protein kinase cGMP-dependent 1); PARTICIPATES IN eicosanoid signaling pathway; long term depression; INTERACTS WITH 1H-[1,2,4]oxadiazolo[4,3-a]quinoxalin-1-one; 3,4-methylenedioxymethamphetamine; 7-NITROINDAZOLE.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: cAMP-dependent protein kinase catalytic subunit PRKX-like; cGk1; cGMP dependent protein kinase type 1; cGMP dependent protein kinase type1; cGMP-dependent protein kinase 1; LOC100912084; LOC365449; Pkgi; Prkg1_mapped; protein kinase, cGMP-dependent, type 1; protein kinase, cGMP-dependent, type 1 (mapped); Protein kinase, cGMP-dependent, type I
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
mRatBN7.21228,409,883 - 229,638,794 (-)NCBImRatBN7.2
Rnor_6.01248,982,039 - 250,300,952 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01256,221,067 - 257,537,289 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41234,420,597 - 235,765,375 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11235,515,049 - 235,845,833 (-)NCBI
Celera1225,545,145 - 226,760,176 (-)NCBICelera
Cytogenetic Map1q52NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
17alpha-ethynylestradiol  (ISO)
1H-[1,2,4]oxadiazolo[4,3-a]quinoxalin-1-one  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
3,4-methylenedioxymethamphetamine  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
7-NITROINDAZOLE  (EXP)
8-(4-chlorophenylthio)-cGMP  (EXP,ISO)
8-bromo-3',5'-cyclic GMP  (EXP,ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
aldehydo-D-glucose  (EXP)
ammonia  (EXP)
apocynin  (EXP)
arsenite(3-)  (ISO)
avobenzone  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
C60 fullerene  (EXP)
calcium atom  (ISO)
calcium(0)  (ISO)
calyculin a  (ISO)
captan  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
crocidolite asbestos  (ISO)
cyclosporin A  (EXP)
D-glucose  (EXP)
dexamethasone  (ISO)
dibenziodolium  (EXP)
diethyl malate  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ellagic acid  (ISO)
fluoxetine  (EXP)
folpet  (ISO)
formaldehyde  (EXP)
geldanamycin  (ISO)
glucose  (EXP)
hydralazine  (ISO)
indometacin  (ISO)
KT 5823  (ISO)
lead diacetate  (EXP)
menadione  (EXP)
methamphetamine  (ISO)
methapyrilene  (ISO)
methylmercury chloride  (ISO)
mevinphos  (EXP)
monocrotaline  (EXP)
morphine  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
nickel atom  (ISO)
nitroglycerin  (EXP)
Nor-9-carboxy-delta9-THC  (ISO)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
phenylephrine  (EXP)
phenylmercury acetate  (ISO)
picoxystrobin  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
reactive oxygen species  (EXP)
resveratrol  (EXP,ISO)
rotenone  (ISO)
S-nitroso-N-acetyl-D-penicillamine  (EXP)
SB 431542  (ISO)
sildenafil citrate  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sucrose  (EXP)
sulindac sulfone  (ISO)
tadalafil  (ISO)
tamoxifen  (ISO)
testosterone enanthate  (EXP,ISO)
tetrachloromethane  (ISO)
thalidomide  (ISO)
thioacetamide  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triptorelin  (EXP)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vorinostat  (ISO)
Y-27632  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Airhart N, etal., J Biol Chem. 2003 Oct 3;278(40):38693-8. Epub 2003 Jul 10.
2. Andric SA, etal., Biol Reprod. 2010 Sep;83(3):434-42. doi: 10.1095/biolreprod.110.083626. Epub 2010 May 12.
3. Bivalacqua TJ, etal., BJU Int. 2007 Jun;99(6):1488-94. Epub 2007 Mar 12.
4. Butt E, etal., Br J Pharmacol. 1995 Dec;116(8):3110-6.
5. Clementi E, etal., Mol Pharmacol. 1995 Mar;47(3):517-24.
6. Coffey MJ, etal., Biochim Biophys Acta. 2008 Jun-Jul;1781(6-7):299-305. doi: 10.1016/j.bbalip.2008.04.005. Epub 2008 Apr 24.
7. Fiedler B, etal., J Biol Chem. 2006 Oct 27;281(43):32831-40. Epub 2006 Aug 29.
8. Gambaryan S, etal., J Clin Invest 1996 Aug 1;98(3):662-70.
9. Gerzanich V, etal., Circ Res. 2003 Oct 31;93(9):805-12. Epub 2003 Sep 25.
10. Giricz Z, etal., Br J Pharmacol. 2009 Nov;158(6):1495-502. doi: 10.1111/j.1476-5381.2009.00424.x. Epub 2009 Oct 20.
11. Janjic MM, etal., J Sex Med. 2012 Oct;9(10):2534-43. doi: 10.1111/j.1743-6109.2012.02674.x. Epub 2012 Mar 16.
12. Jaumann M, etal., Nat Med. 2012 Jan 22;18(2):252-9. doi: 10.1038/nm.2634.
13. Jorgensen TD, etal., FEBS Lett. 1996 Aug 5;391(1-2):117-20.
14. Jurado S, etal., Brain Res Bull. 2005 Mar 15;65(2):111-5. Epub 2005 Jan 8.
15. Kyle BD, etal., FASEB J. 2013 May;27(5):2027-38. doi: 10.1096/fj.12-223669. Epub 2013 Feb 13.
16. Maas O, etal., Br J Pharmacol. 2008 May;154(1):25-31. doi: 10.1038/bjp.2008.71. Epub 2008 Mar 10.
17. Muller D, etal., Reproduction. 2011 Aug;142(2):333-43. doi: 10.1530/REP-10-0517. Epub 2011 Apr 21.
18. OMIM Disease Annotation Pipeline
19. Pellegrino D, etal., Biochim Biophys Acta. 2009 Jul;1787(7):818-27. doi: 10.1016/j.bbabio.2009.02.007. Epub 2009 Feb 24.
20. Pipeline to import KEGG annotations from KEGG into RGD
21. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
22. Piwkowska A, etal., Biochim Biophys Acta. 2013 Jun;1832(6):791-804. doi: 10.1016/j.bbadis.2013.02.011. Epub 2013 Feb 21.
23. Pohler D, etal., FEBS Lett. 1995 Nov 6;374(3):419-25.
24. RGD automated data pipeline
25. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
26. RGD automated import pipeline for gene-chemical interactions
27. Sakai H, etal., Microvasc Res. 2013 Nov;90:150-3. doi: 10.1016/j.mvr.2013.08.009. Epub 2013 Sep 5.
28. Sandberg M, etal., FEBS Lett. 1989 Sep 25;255(2):321-9.
29. Sequeira SM, etal., Neurosci Lett. 1999 Feb 12;261(1-2):29-32.
30. Shi F, etal., J Androl. 2005 Mar-Apr;26(2):258-63.
31. Soro-Paavonen A, etal., J Hypertens. 2010 Apr;28(4):780-8. doi: 10.1097/HJH.0b013e328335043e.
32. Sugiura T, etal., Circ Res. 2008 Jul 3;103(1):53-60. doi: 10.1161/CIRCRESAHA.108.176321. Epub 2008 Jun 5.
33. Tegeder I, etal., Neurosci Lett. 2002 Oct 31;332(2):146-50.
34. Tegeder I, etal., Proc Natl Acad Sci U S A. 2004 Mar 2;101(9):3253-7. Epub 2004 Feb 18.
35. Tischkau SA, etal., J Neurosci. 2003 Aug 20;23(20):7543-50.
36. Vaandrager AB, etal., J Biol Chem. 1997 May 2;272(18):11816-23.
37. Zanetti M, etal., Atherosclerosis. 2005 Jul;181(1):69-73. Epub 2005 Feb 12.
38. Zhou Y, etal., Cardiovasc Res. 2009 Oct 1;84(1):54-63. doi: 10.1093/cvr/cvp178. Epub 2009 Jun 19.
39. Zhuang D, etal., Am J Physiol Heart Circ Physiol. 2005 Apr;288(4):H1859-66. Epub 2004 Dec 2.
Additional References at PubMed
PMID:10671526   PMID:11799084   PMID:12177418   PMID:14608379   PMID:14609817   PMID:14960318   PMID:15184388   PMID:15465019   PMID:15483626   PMID:15564589   PMID:15905169   PMID:16055922  
PMID:16154207   PMID:16632465   PMID:16870832   PMID:16990611   PMID:17182580   PMID:17717153   PMID:17878170   PMID:18280805   PMID:18723505   PMID:19127022   PMID:19168131   PMID:19244401  
PMID:19656393   PMID:19961855   PMID:20023176   PMID:20039971   PMID:20349314   PMID:20826808   PMID:21402151   PMID:21520075   PMID:22433666   PMID:22479572   PMID:22498562   PMID:22922339  
PMID:23686857   PMID:23770744   PMID:24041960   PMID:24602613   PMID:24911927   PMID:24921837   PMID:25447536   PMID:25855081   PMID:26440524   PMID:26527422   PMID:27066748   PMID:27230807  
PMID:29196237  


Genomics

Candidate Gene Status
Prkg1 is a candidate Gene for QTL Lnnr2
Comparative Map Data
Prkg1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21228,409,883 - 229,638,794 (-)NCBImRatBN7.2
Rnor_6.01248,982,039 - 250,300,952 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01256,221,067 - 257,537,289 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41234,420,597 - 235,765,375 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11235,515,049 - 235,845,833 (-)NCBI
Celera1225,545,145 - 226,760,176 (-)NCBICelera
Cytogenetic Map1q52NCBI
PRKG1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1050,990,888 - 52,298,423 (+)EnsemblGRCh38hg38GRCh38
GRCh381050,990,888 - 52,298,350 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371052,750,648 - 54,058,110 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361052,420,951 - 53,725,280 (+)NCBINCBI36hg18NCBI36
Build 341052,504,298 - 53,725,280NCBI
Celera1046,013,603 - 47,318,321 (+)NCBI
Cytogenetic Map10q11.23-q21.1NCBI
HuRef1046,729,527 - 48,036,312 (+)NCBIHuRef
CHM1_11053,032,644 - 54,339,928 (+)NCBICHM1_1
Prkg1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391930,541,887 - 31,742,667 (-)NCBIGRCm39mm39
GRCm39 Ensembl1930,541,889 - 31,742,433 (-)Ensembl
GRCm381930,564,487 - 31,765,268 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1930,564,489 - 31,765,033 (-)EnsemblGRCm38mm10GRCm38
MGSCv371930,642,041 - 31,839,523 (-)NCBIGRCm37mm9NCBIm37
MGSCv361930,633,548 - 31,831,030 (-)NCBImm8
Celera1931,351,778 - 32,553,439 (-)NCBICelera
Cytogenetic Map19C1NCBI
Prkg1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554256,176,432 - 7,331,446 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554256,176,335 - 7,335,867 (+)NCBIChiLan1.0ChiLan1.0
PRKG1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11049,778,821 - 51,069,314 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1049,779,211 - 51,064,882 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01047,642,312 - 48,935,188 (+)NCBIMhudiblu_PPA_v0panPan3
PRKG1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12635,732,974 - 36,932,744 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2635,737,242 - 36,932,729 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2635,620,229 - 36,818,502 (-)NCBI
ROS_Cfam_1.02637,271,288 - 38,465,630 (-)NCBI
UMICH_Zoey_3.12635,169,158 - 36,367,548 (-)NCBI
UNSW_CanFamBas_1.02634,756,074 - 35,955,695 (-)NCBI
UU_Cfam_GSD_1.02635,996,645 - 37,196,072 (-)NCBI
Prkg1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721375,309,475 - 76,469,932 (-)NCBI
SpeTri2.0NW_004936787330,390 - 1,491,994 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRKG1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1497,560,785 - 98,793,318 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11497,558,531 - 98,793,080 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214106,256,149 - 107,028,245 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sscrofa10.214107,499,623 - 107,663,552 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PRKG1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1978,858,269 - 80,188,163 (-)NCBI
Vero_WHO_p1.0NW_02366604839,812,502 - 40,750,048 (-)NCBI
Prkg1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462479111,334,146 - 12,656,480 (-)NCBI

Position Markers
D1Mgh25  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21229,550,480 - 229,550,676 (+)MAPPERmRatBN7.2
Rnor_6.01250,195,095 - 250,195,290NCBIRnor6.0
Rnor_5.01257,430,524 - 257,430,719UniSTSRnor5.0
RGSC_v3.41235,677,487 - 235,677,683RGDRGSC3.4
RGSC_v3.41235,677,488 - 235,677,683UniSTSRGSC3.4
RGSC_v3.11235,841,510 - 235,841,706RGD
Celera1226,671,919 - 226,672,114UniSTS
Cytogenetic Map1q52UniSTS
D1Rat75  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21228,985,440 - 228,985,618 (+)MAPPERmRatBN7.2
Rnor_6.01249,607,907 - 249,608,084NCBIRnor6.0
Rnor_5.01256,846,704 - 256,846,881UniSTSRnor5.0
RGSC_v3.41235,098,616 - 235,098,949RGDRGSC3.4
RGSC_v3.41235,098,674 - 235,098,851UniSTSRGSC3.4
RGSC_v3.11235,262,639 - 235,262,972RGD
Celera1226,110,015 - 226,110,192UniSTS
SHRSP x BN Map1126.57UniSTS
SHRSP x BN Map1126.57RGD
FHH x ACI Map1116.87RGD
Cytogenetic Map1q52UniSTS
D1Rat301  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21228,581,588 - 228,581,766 (+)MAPPERmRatBN7.2
Rnor_6.01249,206,242 - 249,206,417NCBIRnor6.0
Rnor_5.01256,444,932 - 256,445,107UniSTSRnor5.0
Rnor_5.01262,883,614 - 262,883,789UniSTSRnor5.0
RGSC_v3.41234,595,190 - 234,595,366RGDRGSC3.4
RGSC_v3.41234,595,191 - 234,595,366UniSTSRGSC3.4
RGSC_v3.11234,759,214 - 234,759,389RGD
Celera1225,716,310 - 225,716,485UniSTS
RH 3.4 Map11618.9UniSTS
RH 3.4 Map11618.9RGD
RH 2.0 Map11185.7RGD
SHRSP x BN Map1126.57RGD
Cytogenetic Map1q52UniSTS
D1Rat371  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21228,617,884 - 228,618,176 (+)MAPPERmRatBN7.2
Rnor_6.01249,242,639 - 249,242,930NCBIRnor6.0
Rnor_5.01256,481,329 - 256,481,620UniSTSRnor5.0
RGSC_v3.41234,631,432 - 234,631,857RGDRGSC3.4
RGSC_v3.41234,631,485 - 234,631,776UniSTSRGSC3.4
RGSC_v3.11234,795,508 - 234,795,799RGD
Celera1225,752,215 - 225,752,506UniSTS
RH 3.4 Map11618.0RGD
RH 3.4 Map11618.0UniSTS
RH 2.0 Map11185.8RGD
SHRSP x BN Map1126.57RGD
Cytogenetic Map1q52UniSTS
D1Got245  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21228,602,908 - 228,603,109 (+)MAPPERmRatBN7.2
Rnor_6.01249,227,664 - 249,227,864NCBIRnor6.0
Rnor_5.01256,466,354 - 256,466,554UniSTSRnor5.0
Rnor_5.01262,862,271 - 262,862,471UniSTSRnor5.0
RGSC_v3.41234,616,508 - 234,616,709RGDRGSC3.4
RGSC_v3.41234,616,509 - 234,616,709UniSTSRGSC3.4
RGSC_v3.11234,780,532 - 234,780,732RGD
Celera1225,737,504 - 225,737,704UniSTS
RH 3.4 Map11619.0RGD
RH 3.4 Map11619.0UniSTS
RH 2.0 Map11197.5RGD
Cytogenetic Map1q52UniSTS
D1Uia16  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21228,972,050 - 228,972,319 (+)MAPPERmRatBN7.2
Rnor_6.01249,594,421 - 249,594,689NCBIRnor6.0
Rnor_5.01256,833,218 - 256,833,486UniSTSRnor5.0
RGSC_v3.41235,079,922 - 235,080,191RGDRGSC3.4
RGSC_v3.41235,079,923 - 235,080,191UniSTSRGSC3.4
RGSC_v3.11235,243,945 - 235,244,214RGD
Celera1226,096,894 - 226,097,162UniSTS
Cytogenetic Map1q52UniSTS
RH133105  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21229,558,329 - 229,558,526 (+)MAPPERmRatBN7.2
Rnor_6.01250,207,927 - 250,208,123NCBIRnor6.0
Rnor_6.01250,202,943 - 250,203,139NCBIRnor6.0
Rnor_5.01257,438,372 - 257,438,568UniSTSRnor5.0
Rnor_5.01257,443,356 - 257,443,552UniSTSRnor5.0
RGSC_v3.41235,685,336 - 235,685,532UniSTSRGSC3.4
Celera1226,679,768 - 226,679,964UniSTS
Cytogenetic Map1q52UniSTS
BF392245  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21229,323,292 - 229,323,471 (+)MAPPERmRatBN7.2
Rnor_6.01249,954,285 - 249,954,463NCBIRnor6.0
Rnor_5.01257,190,780 - 257,190,958UniSTSRnor5.0
RGSC_v3.41235,447,302 - 235,447,480UniSTSRGSC3.4
Celera1226,444,839 - 226,445,017UniSTS
RH 3.4 Map11619.2UniSTS
Cytogenetic Map1q52UniSTS
BF396337  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21228,989,146 - 228,989,340 (+)MAPPERmRatBN7.2
Rnor_6.01249,611,611 - 249,611,804NCBIRnor6.0
Rnor_5.01256,850,408 - 256,850,601UniSTSRnor5.0
RGSC_v3.41235,102,378 - 235,102,571UniSTSRGSC3.4
Celera1226,113,717 - 226,113,910UniSTS
RH 3.4 Map11619.5UniSTS
Cytogenetic Map1q52UniSTS
BF404353  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21229,024,644 - 229,024,844 (+)MAPPERmRatBN7.2
Rnor_6.01249,647,106 - 249,647,305NCBIRnor6.0
Rnor_5.01256,885,547 - 256,885,746UniSTSRnor5.0
RGSC_v3.41237,138,936 - 237,139,135UniSTSRGSC3.4
Celera1226,148,793 - 226,148,992UniSTS
RH 3.4 Map11647.02UniSTS
Cytogenetic Map1q52UniSTS
AU048249  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21228,839,017 - 228,839,199 (+)MAPPERmRatBN7.2
Rnor_6.01249,461,588 - 249,461,769NCBIRnor6.0
Rnor_5.01256,700,441 - 256,700,622UniSTSRnor5.0
RGSC_v3.41234,857,973 - 234,858,154UniSTSRGSC3.4
Celera1225,969,235 - 225,969,416UniSTS
Cytogenetic Map1q52UniSTS
RH138063  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21229,432,243 - 229,432,391 (+)MAPPERmRatBN7.2
Rnor_6.01250,064,397 - 250,064,544NCBIRnor6.0
Rnor_5.01257,300,391 - 257,300,538UniSTSRnor5.0
RGSC_v3.41235,556,813 - 235,556,960UniSTSRGSC3.4
Celera1226,553,757 - 226,553,904UniSTS
Cytogenetic Map1q52UniSTS
Prkg1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21229,638,525 - 229,638,798 (+)MAPPERmRatBN7.2
Rnor_6.01250,300,684 - 250,300,956NCBIRnor6.0
Rnor_5.01257,537,021 - 257,537,293UniSTSRnor5.0
RGSC_v3.41235,765,107 - 235,765,379UniSTSRGSC3.4
Celera1226,759,908 - 226,760,180UniSTS
Cytogenetic Map1q52UniSTS
D19Dcr84  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21229,174,789 - 229,174,869 (+)MAPPERmRatBN7.2
Rnor_6.01249,812,118 - 249,812,197NCBIRnor6.0
Rnor_5.01257,049,182 - 257,049,261UniSTSRnor5.0
Celera1226,297,609 - 226,297,688UniSTS
Cytogenetic Map1q52UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2292216Bw80Body weight QTL 803.230.0019body mass (VT:0001259)body weight (CMO:0000012)1213533809243914901Rat
70211Niddm24Non-insulin dependent diabetes mellitus QTL 243.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1214647894259647894Rat
631215Stl8Serum triglyceride level QTL 89.270.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1225126575260522016Rat
2302040Pia35Pristane induced arthritis QTL 353.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1216255568260522016Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1197697768242697768Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
61455Niddm7Non-insulin dependent diabetes mellitus QTL 75.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1214537555238757011Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
724533Rf51Renal function QTL 515.30.0002kidney plasma flow trait (VT:0005524)renal plasma flow (CMO:0001914)1218753816256448513Rat
724538Kidm1Kidney mass QTL 13.2kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1213707201252085212Rat
724552Glom2Glomerulus QTL 23.30.0001kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)1222363780260522016Rat
734767Niddm57Non-insulin dependent diabetes mellitus QTL 57body mass (VT:0001259)body weight (CMO:0000012)1224054293260122809Rat
734768Niddm59Non-insulin dependent diabetes mellitus QTL 59body mass (VT:0001259)body weight (CMO:0000012)1213843987258843987Rat
734769Niddm58Non-insulin dependent diabetes mellitus QTL 58body mass (VT:0001259)body weight (CMO:0000012)1224569538260122809Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1197814409242814409Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1196248093241248093Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1221264111259647894Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1176426412257976495Rat
1300168Bp170Blood pressure QTL 1702.76arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1207702246228581766Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1197697768238755659Rat
1598821Rf55Renal function QTL 556.3renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1218748008257976495Rat
2300175Bmd40Bone mineral density QTL 4015.40.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)1201554356246554356Rat
2293655Bss36Bone structure and strength QTL 3610.660.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1201554356246554356Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1201554356246554356Rat
2293694Bss38Bone structure and strength QTL 387.050.0001femur strength trait (VT:0010010)femur stiffness (CMO:0001674)1201554356246554356Rat
2293700Bmd27Bone mineral density QTL 276.60.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1224054293243747962Rat
2293701Bmd34Bone mineral density QTL 348.30.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)1224054293243747962Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1184550676229550676Rat
631843Bw116Body weight QTL 1164.10.016abdominal adipose amount (VT:1000220)abdominal fat pad weight (CMO:0000088)1224054293260122809Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1199050459259647894Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1178810256240830002Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1197814409242814409Rat
1357399Bw45Body weight QTL 453.05body mass (VT:0001259)body mass index (BMI) (CMO:0000105)1206329708251329708Rat
1357404Bw42Body weight QTL 424.490.0001body mass (VT:0001259)body weight (CMO:0000012)1206329708251329708Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1203995416244113296Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1197670404242670404Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
1600392Bw123Body weight QTL 1230.001body mass (VT:0001259)body weight (CMO:0000012)1223201027260522016Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1195804352257091168Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1206081677251081677Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1300108Rf8Renal function QTL 83.75renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1228581588259647894Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1177227632256448636Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1177227632256448636Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1549910Bw54Body weight QTL 540.05body mass (VT:0001259)body weight (CMO:0000012)1214647894259647894Rat
2316896Gluco57Glucose level QTL 577.2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1228985440245907899Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1192825253243914732Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393243914901Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1185356336231689108Rat
1358890Bp259Blood pressure QTL 2593.06arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1210702053260522016Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1191019702246062233Rat
1358916Kidm22Kidney mass QTL 223.32kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1210702053240947965Rat
1358292Cm37Cardiac mass QTL 376.20.00000081heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1196248093241248093Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1216255568260522016Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1197814409242814409Rat
61400Niddm1Non-insulin dependent diabetes mellitus QTL 111blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1218753689245907899Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1183970203243914901Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1193113876238113876Rat
7394701Uae46Urinary albumin excretion QTL 463.60.0056urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1201554356246554356Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1183970203243914901Rat
10053715Scort24Serum corticosterone level QTL 242.130.0088blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1221414816260522016Rat
10059587Bw173Body weight QTL 1733.230.025body mass (VT:0001259)body weight (CMO:0000012)1202069611247069611Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1191033875236033875Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:96
Count of miRNA genes:83
Interacting mature miRNAs:91
Transcripts:ENSRNOT00000041080
Prediction methods:Microtar, 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


Sequence


Reference Sequences
RefSeq Acc Id: NM_001105731   ⟹   NP_001099201
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21228,409,883 - 229,638,794 (-)NCBI
Rnor_6.01248,982,039 - 250,300,952 (-)NCBI
Rnor_5.01256,221,067 - 257,537,289 (-)NCBI
RGSC_v3.41234,420,597 - 235,765,375 (-)RGD
Celera1225,545,145 - 226,760,176 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001099201 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ABX38843 (Get FASTA)   NCBI Sequence Viewer  
  EDM13122 (Get FASTA)   NCBI Sequence Viewer  
  EDM13123 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001099201   ⟸   NM_001105731
- Sequence:


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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)
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
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)
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
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)
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: 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)
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)
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1587390 AgrOrtholog
NCBI Gene 54286 ENTREZGENE
PhenoGen Prkg1 PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Prkg1  protein kinase cGMP-dependent 1  LOC100912084  cAMP-dependent protein kinase catalytic subunit PRKX-like  Data Merged 737654 PROVISIONAL
2019-04-03 Prkg1  protein kinase cGMP-dependent 1  Prkg1  protein kinase, cGMP-dependent, type 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-05 LOC100912084  cAMP-dependent protein kinase catalytic subunit PRKX-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 Prkg1  protein kinase, cGMP-dependent, type 1  Prkg1_predicted  protein kinase, cGMP-dependent, type 1  'predicted' is removed 2292626 APPROVED
2007-04-13   protein kinase, cGMP-dependent, type 1  Prkg1_predicted  protein kinase, cGMP-dependent, type 1 (predicted)  Name updated 737654 APPROVED
2007-04-12 Prkg1_predicted  protein kinase, cGMP-dependent, type 1 (predicted)  Prkg1  protein kinase, cGMP-dependent, type 1 (mapped)  Nomenclature changed to reflect predicted status 1299863 APPROVED
2007-04-12 Prkg1  protein kinase, cGMP-dependent, type 1 (mapped)  Prkg1_predicted_retired  protein kinase, cGMP-dependent, type I (RETIRED predicted)  Data Merged 737654 APPROVED
2006-11-19 Prkg1  protein kinase, cGMP-dependent, type 1 (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Prkg1_mapped  protein kinase, cGMP-dependent, type 1 (mapped)  Prkg1  protein kinase, cGMP-dependent, type 1  Symbol and Name updated 1556543 APPROVED
2005-01-20 Prkg1  protein kinase, cGMP-dependent, type 1    cGMP dependent protein kinase type1  Name updated 1299863 APPROVED
2005-01-12 Prkg1_predicted  protein kinase, cGMP-dependent, type I (predicted)      Symbol and Name status set to approved 70820 APPROVED
2002-06-10 Prkg1  cGMP dependent protein kinase type1      Name updated 70585 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed at high levels in cerebellar Purkinje cells and human platelets, moderately in vascular smooth muscle cells, and at a lower levels in cardiac myocytes 61502
gene_mapping maps between D1Mit6 and D1Mit7 on rat chr 1 61022
gene_process lowers intracellular Ca2+, and inhibits vascular smooth muscle contraction, platelet activation and endothelial cell permeability, thereby opposing events leading to hypertension, thrombosis, and atherosclerosis 61502