Ptgs1 (prostaglandin-endoperoxide synthase 1) - Rat Genome Database
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Gene: Ptgs1 (prostaglandin-endoperoxide synthase 1) Rattus norvegicus
Analyze
Symbol: Ptgs1
Name: prostaglandin-endoperoxide synthase 1
RGD ID: 3439
Description: Predicted to have prostaglandin-endoperoxide synthase activity. Involved in several processes, including learning or memory; negative regulation of catecholamine secretion; and response to corticosterone. Localizes to cytoplasm and nuclear envelope. Used to study Alzheimer's disease; hepatic encephalopathy; renovascular hypertension; and ulcerative colitis. Biomarker of esophagus adenocarcinoma; glioblastoma; gliosarcoma; polycystic kidney disease; and renal cell carcinoma. Orthologous to human PTGS1 (prostaglandin-endoperoxide synthase 1); PARTICIPATES IN acetylsalicylic acid pharmacodynamics pathway; antipyrine drug pathway; arachidonic acid metabolic pathway; INTERACTS WITH 1,2-dimethylhydrazine; 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: COX-1; Cox-3; Cox1; Cox3; cyclooxygenase 1; cyclooxygenase 3; cyclooxygenase-1; PGH synthase 1; PGHS-1; PHS 1; prostaglandin G/H synthase 1; prostaglandin G/H synthase and cyclooxygenase; prostaglandin H2 synthase 1; prostaglandin-endoperoxide synthase 1 (prostaglandin G/H synthase and cyclooxygenase)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2319,584,015 - 19,605,589 (+)NCBI
Rnor_6.0 Ensembl315,560,712 - 15,582,344 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0315,560,685 - 15,582,339 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0320,869,915 - 20,891,512 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4315,343,832 - 15,365,412 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1315,240,203 - 15,261,784 (+)NCBI
Celera314,295,836 - 14,317,392 (+)NCBICelera
Cytogenetic Map3p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-alpha-viniferin  (ISO)
(+)-catechin  (ISO)
(+)-epicatechin-3-O-gallate  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(R)-amygdalin  (ISO)
(S)-naringenin  (ISO)
1,2-dimethylhydrazine  (EXP,ISO)
1,4-phenylenediamine  (ISO)
1-naphthyl isothiocyanate  (EXP)
1-O-palmitoyl-2-O-(5-oxovaleryl)-sn-glycero-3-phosphocholine  (ISO)
12-HHTrE  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (EXP)
2,6-di-tert-butyl-4-methylphenol  (ISO)
2-[4-[3-[2-(trifluoromethyl)-9-thioxanthenylidene]propyl]-1-piperazinyl]ethanol  (ISO)
2-acetyl-1-alkyl-sn-glycero-3-phosphocholine  (ISO)
2-amino-2-deoxy-D-galactopyranose  (ISO)
2-arachidonoylglycerol  (EXP)
24,25-Dihydroxyvitamin D  (EXP)
3,4-Methylenedioxyamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methyl-3H-imidazo[4,5-f]quinolin-2-amine  (ISO)
3-methylcholanthrene  (ISO)
4,4'-methylene-bis-(2-chloroaniline)  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (EXP,ISO)
5-aza-2'-deoxycytidine  (ISO)
8-Br-cAMP  (ISO)
8-hydroxy-2'-deoxyguanosine  (ISO)
9-cis-retinoic acid  (ISO)
acetaldehyde  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (EXP,ISO)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B2  (ISO)
aldehydo-D-glucose  (EXP)
aliskiren  (EXP)
all-trans-4-oxoretinoic acid  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
aminophenazone  (ISO)
ammonium chloride  (EXP)
amphibole asbestos  (ISO)
antipyrine  (ISO)
antirheumatic drug  (ISO)
apocynin  (EXP)
arachidonic acid  (ISO)
arsenous acid  (ISO)
astemizole  (EXP)
atrazine  (ISO)
benzidine  (ISO)
benzo[a]pyrene  (ISO)
Benzo[a]pyrene-7,8-diol  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
Benzoylpaeoniflorin  (ISO)
biphenyl-4-amine  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
budesonide  (EXP)
bumetanide  (ISO)
bupivacaine  (ISO)
buta-1,3-diene  (ISO)
butyric acid  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
cadmium sulfide  (ISO)
calciol  (ISO)
calcitriol  (EXP,ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
carbon nanotube  (ISO)
carvedilol  (EXP)
celastrol  (ISO)
celecoxib  (EXP,ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
corticosterone  (EXP)
creatinine  (EXP)
curcumin  (ISO)
cyclophosphamide  (ISO)
cyfluthrin  (ISO)
D-glucose  (EXP)
D-penicillamine  (ISO)
DDT  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
diclofenac  (EXP,ISO)
dimethyl sulfoxide  (ISO)
dioxygen  (ISO)
docebenone  (ISO)
donepezil hydrochloride  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
DuP 697  (ISO)
enalapril  (ISO)
endosulfan  (EXP)
enniatin  (ISO)
entinostat  (ISO)
ethanol  (ISO)
etodolac  (ISO)
famotidine  (EXP)
fenofibrate  (EXP)
ferulic acid  (ISO)
fipronil  (EXP)
flavonoids  (EXP)
flunixin  (EXP)
flupenthixol  (ISO)
flurbiprofen  (EXP,ISO)
flutamide  (EXP)
formaldehyde  (EXP)
furan  (EXP)
furosemide  (EXP)
geldanamycin  (ISO)
gemcitabine  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glucose  (EXP)
glycine betaine  (EXP)
glyphosate  (EXP)
histamine  (EXP)
hydrogen chloride  (ISO)
hydrogen peroxide  (EXP)
ibuprofen  (EXP,ISO)
indometacin  (EXP,ISO)
isoliquiritigenin  (ISO)
isoprenaline  (ISO)
isotretinoin  (ISO)
ketorolac  (ISO)
L-ascorbic acid  (EXP)
leukotriene C4  (ISO)
leukotriene D4  (ISO)
leukotriene E4  (ISO)
lipopolysaccharide  (EXP,ISO)
lipoteichoic acid  (EXP)
lornoxicam  (ISO)
lutein  (ISO)
lysophosphatidylcholine  (EXP)
Malabaricone C  (ISO)
MeIQx  (ISO)
mercury dibromide  (ISO)
metamizole sodium  (ISO)
methamphetamine  (ISO)
methapyrilene  (ISO)
methylmercury chloride  (ISO)
miconazole  (EXP)
mifepristone  (EXP,ISO)
minocycline  (EXP)
Mitragynine  (ISO)
Mofezolac (TN)  (EXP,ISO)
morphine  (EXP)
N,N-diethyl-m-toluamide  (EXP)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
nabumetone  (EXP)
naproxen  (EXP,ISO)
nickel dichloride  (ISO)
nickel subsulfide  (EXP)
nicotinic acid  (EXP,ISO)
nimesulide  (ISO)
nitric oxide  (EXP)
nitrofen  (EXP)
NS-398  (EXP,ISO)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
paeoniflorin  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
paricalcitol  (ISO)
patchouli alcohol  (EXP)
Pentagastrin  (EXP)
perfluorooctanoic acid  (EXP)
permethrin  (EXP)
phenacetin  (ISO)
phenobarbital  (ISO)
phenylephrine  (ISO)
phenylmercury acetate  (ISO)
PhIP  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
phosgene  (ISO)
phosphorus atom  (ISO)
phosphorus(.)  (ISO)
pirinixic acid  (EXP,ISO)
piroxicam  (EXP)
potassium dichromate  (ISO)
progesterone  (EXP,ISO)
prostaglandin E2  (EXP,ISO)
pyrazines  (ISO)
Pyridostigmine bromide  (EXP)
quartz  (ISO)
quercetin  (EXP,ISO)
Rebamipide  (EXP)
resveratrol  (EXP,ISO)
rivastigmine  (ISO)
rofecoxib  (ISO)
romidepsin  (ISO)
rotenone  (EXP)
S-adenosyl-L-methioninate  (ISO)
S-adenosyl-L-methionine  (ISO)
SB 431542  (ISO)
SC-58125  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP)
sodium chloride  (EXP)
sodium dichromate  (EXP,ISO)
sodium fluoride  (EXP,ISO)
sodium hydrogensulfite  (EXP)
sodium sulfite  (EXP)
streptozocin  (EXP)
succimer  (ISO)
sulforaphane  (ISO)
sulindac  (EXP)
sulindac sulfide  (ISO)
sulindac sulfone  (EXP)
Sulpyrine  (ISO)
tert-butyl hydroperoxide  (EXP)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
thiostrepton  (ISO)
thromboxane A2  (ISO)
thromboxane B2  (ISO)
thymoquinone  (ISO)
titanium dioxide  (ISO)
trans-piceid  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
troglitazone  (ISO)
urethane  (EXP,ISO)
usnic acid  (ISO)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
zinc atom  (ISO)
zinc oxide  (ISO)
zinc pyrithione  (ISO)
zinc(0)  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
acetylsalicylic acid pharmacodynamics pathway  (ISO)
antipyrine drug pathway  (ISO)
arachidonic acid metabolic pathway  (IEA,ISO)
celecoxib pharmacodynamics pathway  (ISO)
celecoxib pharmacokinetics pathway  (ISO)
cyclooxygenase mediated pathway of arachidonic acid metabolism  (ISO)
diclofenac pharmacodynamics pathway  (ISO)
diflunisal pharmacodynamics pathway  (ISO)
etodolac pharmacodynamics pathway  (ISO)
etoposide pharmacodynamics pathway  (ISO)
etoposide pharmacokinetics pathway  (ISO)
fenoprofen pharmacodynamics pathway  (ISO)
flurbiprofen pharmacodynamics pathway  (ISO)
ibuprofen pharmacodynamics pathway  (ISO)
ibuprofen pharmacokinetics pathway  (ISO)
indometacin pharmacodynamics pathway  (ISO)
indometacin pharmacodynamics pathway  (ISO)
ketoprofen pharmacodynamics pathway  (ISO)
ketorolac pharmacodynamics pathway  (ISO)
leukotriene C4 synthase deficiency pathway  (ISO)
lornoxicam pharmacodynamics pathway  (ISO)
magnesium salicylate pharmacodynamics pathway  (ISO)
mefenamic acid pharmacodynamics pathway  (ISO)
meloxicam pharmacodynamics pathway  (ISO)
nabumetone pharmacodynamics pathway  (ISO)
naproxen pharmacodynamics pathway  (ISO)
paracetamol drug pathway  (ISO)
piroxicam pharmacodynamics pathway  (ISO)
prostanoid biosynthetic pathway  (ISO)
salicylic acid pharmacodynamics pathway  (ISO)
sodium salicylate pharmacodynamics pathway  (ISO)
sulindac pharmacodynamics pathway  (ISO)
tenoxicam pharmacodynamics pathway  (ISO)
tiaprofenic acid pharmacodynamics pathway  (ISO)
tolmetin pharmacodynamics pathway  (ISO)
valdecoxib pharmacodynamics pathway  (ISO)

References

References - curated
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19. GOA data from the GO Consortium
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22. Gupta RA, etal., Cancer Res. 2003 Mar 1;63(5):906-11.
23. Harada N, etal., J Neurotrauma. 2006 Dec;23(12):1739-49.
24. Hirao A, etal., Cardiovasc Res. 2008 Jul 1;79(1):161-8. Epub 2008 May 2.
25. Hirata T and Narumiya S, Adv Immunol. 2012;116:143-74. doi: 10.1016/B978-0-12-394300-2.00005-3.
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31. KEGG
32. Kelso ML, etal., BMC Neurosci. 2009 Aug 31;10:108.
33. Kielbasa W and Stratford RE, Drug Metab Dispos. 2012 Jan 27.
34. Kim HW, etal., Mol Psychiatry. 2011 Apr;16(4):419-28. Epub 2009 Dec 29.
35. Leith JL, etal., J Neurosci. 2007 Oct 17;27(42):11296-305.
36. Lin TN, etal., Arterioscler Thromb Vasc Biol. 2006 Mar;26(3):481-7. Epub 2005 Dec 29.
37. Lu L, etal., Eur J Pharmacol. 2008 Aug 20;590(1-3):177-84. Epub 2008 Jun 18.
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40. Martinez FE, etal., Inflamm Res. 2000 Dec;49(12):727-31.
41. MGD data from the GO Consortium
42. NCBI rat LocusLink and RefSeq merged data July 26, 2002
43. O'Rielly DD and Loomis CW, Anesthesiology. 2007 Apr;106(4):795-805.
44. Okamoto T, etal., Cancer Sci. 2003 Jan;94(1):22-5.
45. Okayama M, etal., Dig Dis Sci. 2007 Sep;52(9):2095-103. Epub 2007 Apr 12.
46. Piazuelo E, etal., Curr Cancer Drug Targets. 2011 Oct 27.
47. Pipeline to import KEGG annotations from KEGG into RGD
48. Pipeline to import SMPDB annotations from SMPDB into RGD
49. Prochazkova M, etal., Physiol Res. 2008 Jul 18.
50. Rao JS, etal., Mol Psychiatry. 2007 Feb;12(2):151-7. Epub 2006 Sep 19.
51. RGD automated data pipeline
52. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
53. RGD automated import pipeline for gene-chemical interactions
54. RGD comprehensive gene curation
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Additional References at PubMed
PMID:1380156   PMID:7864644   PMID:10987272   PMID:11758166   PMID:11849824   PMID:11861778   PMID:12021206   PMID:12093889   PMID:12160205   PMID:12355421   PMID:12467530   PMID:12477932  
PMID:12811798   PMID:12855310   PMID:12888618   PMID:12971960   PMID:14600435   PMID:14613912   PMID:14684611   PMID:15059644   PMID:15207919   PMID:15351851   PMID:15550559   PMID:15633603  
PMID:15644490   PMID:15650114   PMID:15795519   PMID:15935072   PMID:16189289   PMID:16323955   PMID:16357083   PMID:16569634   PMID:16621493   PMID:16781129   PMID:16788145   PMID:16949875  
PMID:17196338   PMID:18292448   PMID:18335410   PMID:18349208   PMID:18414395   PMID:18570454   PMID:19056763   PMID:19060365   PMID:19155631   PMID:19444941   PMID:19449290   PMID:19515980  
PMID:19625688   PMID:19632905   PMID:19658194   PMID:19668263   PMID:19696359   PMID:19845835   PMID:19912740   PMID:19937640   PMID:20549385   PMID:20735829   PMID:21680698   PMID:22219191  
PMID:22436078   PMID:23002358   PMID:23090753   PMID:23358504   PMID:23362192   PMID:23401543   PMID:24014677   PMID:25216050   PMID:25811420   PMID:26612417   PMID:27178425   PMID:27923787  
PMID:28933223  


Genomics

Candidate Gene Status
Ptgs1 is a candidate Gene for QTL Cia11
Ptgs1 is a candidate Gene for QTL Bp52
Ptgs1 is a candidate Gene for QTL Cm25
Comparative Map Data
Ptgs1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2319,584,015 - 19,605,589 (+)NCBI
Rnor_6.0 Ensembl315,560,712 - 15,582,344 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0315,560,685 - 15,582,339 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0320,869,915 - 20,891,512 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4315,343,832 - 15,365,412 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1315,240,203 - 15,261,784 (+)NCBI
Celera314,295,836 - 14,317,392 (+)NCBICelera
Cytogenetic Map3p11NCBI
PTGS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl9122,370,530 - 122,395,703 (+)EnsemblGRCh38hg38GRCh38
GRCh389122,369,906 - 122,395,703 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh379125,132,812 - 125,157,982 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369124,173,050 - 124,197,802 (+)NCBINCBI36hg18NCBI36
Build 349122,212,782 - 122,237,535NCBI
Celera995,781,549 - 95,806,298 (+)NCBI
Cytogenetic Map9q33.2NCBI
HuRef994,747,532 - 94,772,698 (+)NCBIHuRef
CHM1_19125,280,871 - 125,306,038 (+)NCBICHM1_1
Ptgs1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39236,106,758 - 36,142,287 (+)NCBIGRCm39mm39
GRCm39 Ensembl236,120,438 - 36,142,284 (+)Ensembl
GRCm38236,216,742 - 36,258,593 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl236,230,426 - 36,252,272 (+)EnsemblGRCm38mm10GRCm38
MGSCv37236,085,946 - 36,107,789 (+)NCBIGRCm37mm9NCBIm37
MGSCv36236,052,536 - 36,074,271 (+)NCBImm8
Celera235,934,252 - 35,956,092 (+)NCBICelera
Cytogenetic Map2BNCBI
cM Map224.19NCBI
Ptgs1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554195,678,694 - 5,699,305 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554195,678,750 - 5,699,305 (-)NCBIChiLan1.0ChiLan1.0
PTGS1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19121,837,095 - 121,859,283 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9121,837,095 - 121,859,283 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0993,495,365 - 93,517,557 (+)NCBIMhudiblu_PPA_v0panPan3
PTGS1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl960,195,124 - 60,216,819 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1960,195,118 - 60,216,847 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Ptgs1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493648710,745,465 - 10,758,812 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTGS1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1262,456,155 - 262,483,035 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11262,456,106 - 262,482,159 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21294,753,789 - 294,779,835 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PTGS1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11217,195,403 - 17,218,450 (-)NCBI
ChlSab1.1 Ensembl1217,192,628 - 17,218,315 (-)Ensembl
Ptgs1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476012,917,244 - 12,937,858 (-)NCBI

Position Markers
RH130234  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0315,582,138 - 15,582,323NCBIRnor6.0
Rnor_5.0320,891,311 - 20,891,496UniSTSRnor5.0
RGSC_v3.4315,365,214 - 15,365,399UniSTSRGSC3.4
Celera314,317,191 - 14,317,376UniSTS
RH 3.4 Map3178.3UniSTS
Cytogenetic Map3p11UniSTS
BE114403  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0315,572,448 - 15,572,606NCBIRnor6.0
Rnor_5.0320,881,621 - 20,881,779UniSTSRnor5.0
RGSC_v3.4315,355,524 - 15,355,682UniSTSRGSC3.4
Celera314,307,504 - 14,307,662UniSTS
RH 3.4 Map3184.81UniSTS
Cytogenetic Map3p11UniSTS
RH139024  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0315,581,625 - 15,581,757NCBIRnor6.0
Rnor_5.0320,890,798 - 20,890,930UniSTSRnor5.0
RGSC_v3.4315,364,701 - 15,364,833UniSTSRGSC3.4
Celera314,316,678 - 14,316,810UniSTS
RH 3.4 Map11629.1UniSTS
Cytogenetic Map3p11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3125786001Rat
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3128136884Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3128500807Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3132972944Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3137891710Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3139773425Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3195176874Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3263142133477544Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3263142148562146Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3328592928136884Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3328592928136884Rat
8693641Alc30Alcohol consumption QTL 3020.739drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)3565463925105730Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)3600074834394365Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)3600074834394365Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)3600074834394365Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)3600074851687917Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)3600074851687917Rat
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)3600086634394121Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)3600086634394121Rat
1558657Cm43Cardiac mass QTL 436.60.0000000293heart mass (VT:0007028)heart wet weight (CMO:0000069)3600086634394121Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31009408193415837Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31011931879772001Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)310639528127023997Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)310639528127023997Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)31312691436600143Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)31312691436600143Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)31312691436600143Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)31312691436600143Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)heart rate (CMO:0000002)31312691436600143Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)heart rate (CMO:0000002)31312691436600143Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)body weight (CMO:0000012)31312691436600143Rat
634306Bp140Blood pressure QTL 1403.30.0013arterial blood pressure trait (VT:2000000)body weight (CMO:0000012)31312691436600143Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)31312691441510346Rat
2325840Bp345Blood pressure QTL 3450.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31409041129084626Rat
731172Bp151Blood pressure QTL 1510.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31409041148562146Rat
12879849Bw180Body weight QTL 1800.037body mass (VT:0001259)body weight (CMO:0000012)31409041148562146Rat
12879850Cm91Cardiac mass QTL 910.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)31409041148562146Rat
12879851Cm92Cardiac mass QTL 920.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)31409041148562146Rat
12879852Cm93Cardiac mass QTL 930.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)31409041148562146Rat
12879853Am5Aortic mass QTL 50.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)31409041148562146Rat
12879854Kidm63Kidney mass QTL 630.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)31409041148562146Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:96
Count of miRNA genes:83
Interacting mature miRNAs:87
Transcripts:ENSRNOT00000010218
Prediction methods:Miranda
Result types:miRGate_prediction

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

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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 4 38 38 11 38 13 16 11
Low 39 19 3 8 3 8 11 74 22 22 8
Below cutoff 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000010218   ⟹   ENSRNOP00000010218
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl315,560,712 - 15,582,344 (+)Ensembl
RefSeq Acc Id: NM_017043   ⟹   NP_058739
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2319,584,015 - 19,605,589 (+)NCBI
Rnor_6.0315,560,723 - 15,582,339 (+)NCBI
Rnor_5.0320,869,915 - 20,891,512 (+)NCBI
RGSC_v3.4315,343,832 - 15,365,412 (+)RGD
Celera314,295,836 - 14,317,392 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006234063   ⟹   XP_006234125
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0315,560,685 - 15,582,339 (+)NCBI
Rnor_5.0320,869,915 - 20,891,512 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058739   ⟸   NM_017043
- Peptide Label: precursor
- UniProtKB: Q66HK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006234125   ⟸   XM_006234063
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000010218   ⟸   ENSRNOT00000010218
Protein Domains
EGF-like

Transcriptome

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

Promoters
RGD ID:13692025
Promoter ID:EPDNEW_R2549
Type:initiation region
Name:Ptgs1_1
Description:prostaglandin-endoperoxide synthase 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0315,560,719 - 15,560,779EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
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 (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/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 (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)
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
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
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/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
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 (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
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
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
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
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
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 (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
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
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 (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 (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
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 (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 (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 (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:3439 AgrOrtholog
Ensembl Genes ENSRNOG00000007415 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000010218 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000010218 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.10.640.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7129759 IMAGE-MGC_LOAD
InterPro COX-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Haem_peroxidase_animal UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Haem_peroxidase_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Haem_peroxidase_sf_animal UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24693 UniProtKB/TrEMBL
MGC_CLONE MGC:93510 IMAGE-MGC_LOAD
NCBI Gene 24693 ENTREZGENE
PANTHER PTHR11903:SF6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam An_peroxidase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PTGS1 RGD
PhenoGen Ptgs1 PhenoGen
PRINTS ANPEROXIDASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE EGF_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PEROXIDASE_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48113 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt PGH1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q66HK3 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary Q62731 UniProtKB/Swiss-Prot
  Q63684 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2003-04-09 Ptgs1  prostaglandin-endoperoxide synthase 1  Ptgs1  prostaglandin-endoperoxide synthase 1 (prostaglandin G/H synthase and cyclooxygenase)  Name updated 629478 APPROVED