Ppard (peroxisome proliferator-activated receptor delta) - Rat Genome Database

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Gene: Ppard (peroxisome proliferator-activated receptor delta) Rattus norvegicus
Analyze
Symbol: Ppard
Name: peroxisome proliferator-activated receptor delta
RGD ID: 3370
Description: Exhibits NF-kappaB binding activity and fatty acid binding activity. Involved in several processes, including decidualization; negative regulation of collagen biosynthetic process; and positive regulation of insulin secretion involved in cellular response to glucose stimulus. Localizes to nucleus. Human ortholog(s) of this gene implicated in type 2 diabetes mellitus. Orthologous to human PPARD (peroxisome proliferator activated receptor delta); PARTICIPATES IN acute myeloid leukemia pathway; eicosanoid signaling pathway via peroxisome proliferator-activated receptor gamma; Wnt signaling pathway; INTERACTS WITH (+)-schisandrin B; (S)-naringenin; 2-Ethylhexanoic acid.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: peroxisome proliferator activated receptor delta; peroxisome proliferator activator receptor beta; Peroxisome proliferator activator receptor delta; peroxisome proliferator activator receptor, delta; Pparb
RGD Orthologs
Human
Mouse
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
mRatBN7.2206,298,785 - 6,363,970 (+)NCBI
Rnor_6.0 Ensembl207,818,289 - 7,885,333 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0207,818,289 - 7,883,482 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02010,018,464 - 10,083,772 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4206,479,108 - 6,544,255 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1206,479,323 - 6,543,249 (+)NCBI
Celera207,855,191 - 7,920,274 (+)NCBICelera
RH 3.4 Map2075.52RGD
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(5Z,8Z,11Z,13E)-15-HETE  (ISO)
(S)-naringenin  (EXP,ISO)
1,2-dimethylhydrazine  (ISO)
1,4-bis(2-ethylhexyl) sulfosuccinate  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-D  (ISO)
2-bromohexadecanoic acid  (ISO)
2-Ethylhexanoic acid  (EXP)
2-hydroxypropanoic acid  (ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
6-propyl-2-thiouracil  (EXP)
9E,11E-octadecadienoic acid  (ISO)
acetylsalicylic acid  (EXP,ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (EXP)
all-trans-retinoic acid  (EXP,ISO)
alpha-linolenic acid  (EXP,ISO)
ammonium chloride  (EXP)
androgen antagonist  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antimonite  (ISO)
antirheumatic drug  (ISO)
arachidonic acid  (ISO)
arsenite(3-)  (ISO)
aspartame  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
Benzo[k]fluoranthene  (ISO)
beta-naphthoflavone  (EXP)
bezafibrate  (EXP,ISO)
bifenthrin  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
butanal  (ISO)
Butylbenzyl phthalate  (ISO)
butyric acid  (EXP)
cadmium dichloride  (EXP)
calcitriol  (ISO)
cannabidiol  (EXP)
capsaicin  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
celecoxib  (ISO)
CHIR 99021  (ISO)
cilnidipine  (ISO)
clofibrate  (ISO)
clofibric acid  (ISO)
Clofop  (ISO)
cobalt dichloride  (ISO)
conjugated linoleic acid  (EXP,ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
D-glucose  (EXP)
daunorubicin  (EXP,ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
Di-n-decyl phthalate  (ISO)
Di-n-hexyl phthalate  (ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (ISO)
dichloroacetic acid  (ISO)
dichloromethane  (ISO)
dicrotophos  (ISO)
diethyl phthalate  (ISO)
diheptyl phthalate  (ISO)
Diisodecyl phthalate  (ISO)
diisononyl phthalate  (ISO)
Dimethyl phthalate  (ISO)
dipentyl phthalate  (ISO)
dipropyl phthalate  (ISO)
doxorubicin  (ISO)
ellagic acid  (ISO)
enalaprilat dihydrate  (EXP)
endosulfan  (EXP)
ethanol  (EXP,ISO)
felodipine  (ISO)
fenofibrate  (ISO)
fluoranthene  (ISO)
flusilazole  (ISO)
fluvalinate  (ISO)
fructose  (ISO)
furan  (EXP)
gemcitabine  (ISO)
gemfibrozil  (ISO)
glucose  (EXP)
graphene oxide  (ISO)
griseofulvin  (ISO)
GW 2433  (ISO)
GW 501516  (EXP,ISO)
GW 7647  (ISO)
hexadecanoic acid  (EXP,ISO)
hydroquinone  (ISO)
idarubicin  (ISO)
indometacin  (ISO)
isorhamnetin  (ISO)
lacidipine  (ISO)
linoleic acid  (EXP,ISO)
lipopolysaccharide  (EXP,ISO)
methotrexate  (ISO)
methoxychlor  (EXP)
mithramycin  (ISO)
mono(2-ethylhexyl) phthalate  (EXP,ISO)
monobenzyl phthalate  (ISO)
Monobutylphthalate  (ISO)
monoethyl phthalate  (ISO)
monohexyl phthalate  (ISO)
Monomethyl phthalate  (ISO)
monooctyl phthalate  (ISO)
monosodium L-glutamate  (ISO)
N-nitrosodiethylamine  (EXP)
nemorubicin  (ISO)
niclosamide  (ISO)
nimesulide  (ISO)
NMN zwitterion  (ISO)
norathyriol  (ISO)
octanoic acid  (ISO)
okadaic acid  (ISO)
oleic acid  (EXP,ISO)
paracetamol  (ISO)
perflubutane  (ISO)
perfluorododecanoic acid  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorohexanoic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenformin  (EXP)
phenobarbital  (ISO)
phenylephrine  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
phthalic acid  (ISO)
phytanic acid  (ISO)
pioglitazone  (ISO)
Pirarubicin  (ISO)
pirinixic acid  (ISO)
pitavastatin  (ISO)
pitavastatin(1-)  (ISO)
prostaglandin E2  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
rebaudioside A  (ISO)
resveratrol  (EXP,ISO)
Ro 41-5253  (ISO)
rotenone  (EXP)
rutin  (EXP)
SB 203580  (ISO)
sirolimus  (ISO)
Soman  (EXP)
steviol  (ISO)
stevioside  (ISO)
streptozocin  (EXP,ISO)
sulindac  (ISO)
sulindac sulfide  (ISO)
sulindac sulfone  (ISO)
sunitinib  (ISO)
telmisartan  (EXP,ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP,ISO)
thalidomide  (ISO)
titanium dioxide  (ISO)
trichloroethene  (ISO)
triphenylstannane  (EXP)
Triptolide  (ISO)
tunicamycin  (ISO)
tyrphostin AG 1478  (ISO)
urethane  (ISO)
valproic acid  (ISO)
wortmannin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adipose tissue development  (ISO)
apoptotic process  (ISO)
apoptotic signaling pathway  (ISO)
axon ensheathment  (ISO)
cell differentiation  (IBA,ISO)
cell-substrate adhesion  (ISO)
cellular response to hypoxia  (ISO)
cellular response to lipopolysaccharide  (IDA)
decidualization  (IEP)
embryo implantation  (IEP,ISO)
fatty acid beta-oxidation  (ISO)
fatty acid metabolic process  (IBA)
fatty acid oxidation  (IDA)
fatty acid transport  (ISO)
heart development  (IEP)
hormone-mediated signaling pathway  (IBA)
intracellular receptor signaling pathway  (IEA)
keratinocyte migration  (ISO)
keratinocyte proliferation  (ISO)
lipid metabolic process  (IDA,ISO)
negative regulation of apoptotic process  (IDA)
negative regulation of cell growth  (IDA)
negative regulation of cholesterol storage  (IBA)
negative regulation of collagen biosynthetic process  (IMP)
negative regulation of epithelial cell proliferation  (ISO)
negative regulation of inflammatory response  (IBA,IDA)
negative regulation of myoblast differentiation  (ISO)
negative regulation of pri-miRNA transcription by RNA polymerase II  (ISO)
negative regulation of smooth muscle cell migration  (IDA)
negative regulation of smooth muscle cell proliferation  (IDA)
negative regulation of transcription by RNA polymerase II  (IBA,ISO)
phospholipid biosynthetic process  (IDA)
placenta development  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of epidermis development  (IDA)
positive regulation of fatty acid metabolic process  (IBA)
positive regulation of fatty acid oxidation  (IMP)
positive regulation of gene expression  (ISO)
positive regulation of insulin secretion involved in cellular response to glucose stimulus  (IDA)
positive regulation of myoblast proliferation  (ISO)
positive regulation of phosphatidylinositol 3-kinase signaling  (ISO)
positive regulation of skeletal muscle tissue regeneration  (ISO)
positive regulation of transcription by RNA polymerase II  (IBA)
positive regulation of transcription, DNA-templated  (ISO)
proteoglycan metabolic process  (IDA)
regulation of cell population proliferation  (ISO)
regulation of fat cell differentiation  (ISO)
regulation of lipid metabolic process  (IBA)
regulation of skeletal muscle satellite cell proliferation  (ISO)
response to activity  (IEP)
response to glucose  (IEP)
response to lipid  (IBA)
response to organic substance  (IEP)
response to vitamin A  (IEP)
vasodilation  (IDA)
vitamin A metabolic process  (IMP)
wound healing  (ISO)

Cellular Component
chromatin  (ISO)
nucleus  (IDA,ISO)

References

References - curated
1. Abdollahi A, etal., Proc Natl Acad Sci U S A. 2007 Jul 31;104(31):12890-5. Epub 2007 Jul 24.
2. Adams LD, etal., Arterioscler Thromb Vasc Biol 1999 Nov;19(11):2600-8.
3. Almad A and McTigue DM, J Comp Neurol. 2010 Mar 15;518(6):785-99.
4. Andrulionyte L, etal., Diabetes. 2006 Jul;55(7):2148-52.
5. Benani A, etal., J Chem Neuroanat 2003 Jan;25(1):29-38.
6. Bivol LM, etal., Am J Physiol Regul Integr Comp Physiol. 2008 Dec;295(6):R1866-73. Epub 2008 Oct 8.
7. Ding NZ, etal., Reproduction. 2003 Jun;125(6):817-25.
8. Escher P, etal., Endocrinology 2001 Oct;142(10):4195-202.
9. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. Gilde AJ, etal., Circ Res 2003 Mar 21;92(5):518-24.
11. GOA data from the GO Consortium
12. Hellemans K, etal., J Lipid Res. 2003 Feb;44(2):280-95. Epub 2002 Nov 16.
13. Higa R, etal., Mol Hum Reprod. 2007 Feb;13(2):103-10. Epub 2006 Dec 5.
14. Jiang YJ, etal., J Invest Dermatol. 2010 Feb;130(2):511-9. Epub 2009 Aug 13.
15. Jimenez R, etal., J Pharmacol Exp Ther. 2010 Feb;332(2):554-61. Epub 2009 Nov 11.
16. Kapoor A, etal., Shock. 2009 Dec 7.
17. Kim JH, etal., Tumour Biol. 2008;29(1):41-9. Epub 2008 May 23.
18. Kino T, etal., Eur J Clin Invest. 2007 May;37(5):425-33.
19. Kurtz M, etal., Life Sci. 2010 May 22;86(21-22):781-90. Epub 2010 Mar 22.
20. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
21. Lim HJ, etal., Atherosclerosis. 2009 Feb;202(2):446-54. Epub 2008 May 21.
22. MGD data from the GO Consortium
23. NCBI rat LocusLink and RefSeq merged data July 26, 2002
24. Pesant M, etal., Cardiovasc Res. 2006 Feb 1;69(2):440-9. Epub 2005 Dec 6.
25. Pipeline to import KEGG annotations from KEGG into RGD
26. Planavila A, etal., J Biol Chem. 2005 Apr 29;280(17):17464-71. Epub 2005 Feb 22.
27. Poleni PE, etal., Osteoarthritis Cartilage. 2007 May;15(5):493-505. Epub 2006 Nov 29.
28. Ravnskjaer K, etal., J Lipid Res. 2010 Jun;51(6):1370-9. Epub 2009 Nov 30.
29. Rector RS, etal., Am J Physiol Endocrinol Metab. 2010 Mar 16.
30. RGD automated data pipeline
31. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
32. RGD automated import pipeline for gene-chemical interactions
33. Sheng L, etal., Clin Exp Hypertens. 2008 Feb;30(2):109-19.
34. Shin HD, etal., Diabetes. 2004 Mar;53(3):847-51.
35. Steinmetz M, etal., Basic Res Cardiol. 2005 May;100(3):263-9. Epub 2005 Mar 9.
36. Tanaka T, etal., Proc Natl Acad Sci U S A. 2003 Dec 23;100(26):15924-9. Epub 2003 Dec 15.
37. Vega VA, etal., Nutrition. 2009 Jul-Aug;25(7-8):828-38. Epub 2009 Apr 1.
38. Winzell MS, etal., Eur J Pharmacol. 2009 Oct 7.
39. Xing G, etal., Biochem Biophys Res Commun 1995 Dec 26;217(3):1015-25.
40. Yu BC, etal., Cardiovasc Res. 2008 Oct 1;80(1):78-87. Epub 2008 Jun 23.
41. Zhang H, etal., Arch Biochem Biophys. 2007 Apr 1;460(1):25-32. Epub 2007 Feb 16.
42. Zhou JY and Zhou SW, Yao Xue Xue Bao. 2007 Dec;42(12):1243-9.
Additional References at PubMed
PMID:8041794   PMID:8889548   PMID:9113987   PMID:10198642   PMID:10385625   PMID:10866668   PMID:11511099   PMID:11514592   PMID:11551955   PMID:11756685   PMID:12909723   PMID:12955147  
PMID:14758356   PMID:15001550   PMID:15380519   PMID:15713628   PMID:16328010   PMID:16406631   PMID:16581799   PMID:16698033   PMID:16896941   PMID:17463039   PMID:17540700   PMID:17643263  
PMID:17869249   PMID:17908795   PMID:18024478   PMID:18157544   PMID:18239634   PMID:18287212   PMID:18543250   PMID:18701451   PMID:18836674   PMID:19080338   PMID:19224536   PMID:19587222  
PMID:19596004   PMID:20209098   PMID:20445066   PMID:20538899   PMID:20628611   PMID:21825230   PMID:21896929   PMID:22040534   PMID:22271545   PMID:22729460   PMID:22917842   PMID:23052247  
PMID:23555761   PMID:23701913   PMID:23724037   PMID:23779049   PMID:23803968   PMID:24011070   PMID:24128860   PMID:24269940   PMID:24527778   PMID:24624894   PMID:25002582   PMID:25300478  
PMID:25530507   PMID:25732738   PMID:26504087   PMID:26628385   PMID:26654758   PMID:26862756   PMID:26936652   PMID:27283742   PMID:27413020   PMID:27573670   PMID:28267873   PMID:28621328  
PMID:29109080   PMID:29408825   PMID:31163124   PMID:32102354  


Genomics

Comparative Map Data
Ppard
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2206,298,785 - 6,363,970 (+)NCBI
Rnor_6.0 Ensembl207,818,289 - 7,885,333 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0207,818,289 - 7,883,482 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02010,018,464 - 10,083,772 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4206,479,108 - 6,544,255 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1206,479,323 - 6,543,249 (+)NCBI
Celera207,855,191 - 7,920,274 (+)NCBICelera
RH 3.4 Map2075.52RGD
Cytogenetic Map20p12NCBI
PPARD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl635,342,558 - 35,428,191 (+)EnsemblGRCh38hg38GRCh38
GRCh38635,342,558 - 35,428,180 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37635,310,335 - 35,395,955 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36635,418,313 - 35,503,933 (+)NCBINCBI36hg18NCBI36
Build 34635,418,363 - 35,501,149NCBI
Celera636,864,336 - 36,949,951 (+)NCBI
Cytogenetic Map6p21.31NCBI
HuRef635,031,309 - 35,116,788 (+)NCBIHuRef
CHM1_1635,312,398 - 35,397,989 (+)NCBICHM1_1
1810013A23Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391728,490,682 - 28,492,137 (+)NCBIGRCm39mm39
GRCm39 Ensembl1728,451,674 - 28,520,448 (+)Ensembl
GRCm381728,271,708 - 28,273,163 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1728,232,700 - 28,301,474 (+)EnsemblGRCm38mm10GRCm38
MGSCv371728,408,653 - 28,410,108 (+)NCBIGRCm37mm9NCBIm37
MGSCv361728,408,653 - 28,410,108 (+)NCBImm8
Celera1728,825,587 - 28,827,042 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
Ppard
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391728,451,657 - 28,520,446 (+)NCBIGRCm39mm39
GRCm39 Ensembl1728,451,674 - 28,520,448 (+)Ensembl
GRCm381728,232,754 - 28,301,469 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1728,232,700 - 28,301,474 (+)EnsemblGRCm38mm10GRCm38
MGSCv371728,369,699 - 28,438,414 (+)NCBIGRCm37mm9NCBIm37
MGSCv361727,960,392 - 28,029,058 (+)NCBImm8
Celera1728,786,405 - 28,855,326 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1714.64NCBI
Ppard
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554373,288,830 - 3,357,048 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554373,285,281 - 3,354,099 (+)NCBIChiLan1.0ChiLan1.0
PPARD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1636,003,914 - 36,081,132 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl636,003,988 - 36,081,132 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0634,903,798 - 34,987,208 (+)NCBIMhudiblu_PPA_v0panPan3
PPARD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1124,492,867 - 4,579,340 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl124,492,672 - 4,579,340 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha124,582,161 - 4,595,131 (+)NCBI
ROS_Cfam_1.0124,830,969 - 4,918,771 (+)NCBI
UMICH_Zoey_3.1124,565,298 - 4,578,271 (+)NCBI
UNSW_CanFamBas_1.0124,643,973 - 4,656,940 (+)NCBI
UU_Cfam_GSD_1.0124,744,188 - 4,757,152 (+)NCBI
Ppard
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494640,073,598 - 40,147,140 (+)NCBI
SpeTri2.0NW_00493647623,799,285 - 23,886,606 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPARD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl731,222,589 - 31,295,212 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1731,222,533 - 31,295,221 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2736,141,634 - 36,215,255 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PPARD
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11736,695,546 - 36,779,554 (-)NCBI
ChlSab1.1 Ensembl1736,695,494 - 36,779,577 (-)Ensembl
Ppard
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475422,021,465 - 22,084,320 (-)NCBI

Position Markers
BE119633  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0207,847,217 - 7,847,378NCBIRnor6.0
Rnor_5.02010,047,391 - 10,047,552UniSTSRnor5.0
RGSC_v3.4206,508,036 - 6,508,197UniSTSRGSC3.4
Celera207,884,117 - 7,884,278UniSTS
RH 3.4 Map2075.9UniSTS
Cytogenetic Map20p12UniSTS
RH134478  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0207,883,196 - 7,883,378NCBIRnor6.0
Rnor_5.02010,083,486 - 10,083,668UniSTSRnor5.0
RGSC_v3.4206,543,969 - 6,544,151UniSTSRGSC3.4
Celera207,919,988 - 7,920,170UniSTS
RH 3.4 Map2075.93UniSTS
Cytogenetic Map20p12UniSTS
RH94815  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0207,882,043 - 7,882,198NCBIRnor6.0
Rnor_5.02010,082,333 - 10,082,488UniSTSRnor5.0
RGSC_v3.4206,542,816 - 6,542,971UniSTSRGSC3.4
Celera207,918,835 - 7,918,990UniSTS
RH 3.4 Map2075.52UniSTS
Cytogenetic Map20p12UniSTS
PMC137182P9  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0207,880,293 - 7,880,397NCBIRnor6.0
Rnor_5.02010,080,583 - 10,080,687UniSTSRnor5.0
RGSC_v3.4206,541,066 - 6,541,170UniSTSRGSC3.4
Celera207,917,085 - 7,917,189UniSTS
Cytogenetic Map20p12UniSTS
MARC_45796-45797:1102976080:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0207,877,821 - 7,879,132NCBIRnor6.0
Rnor_5.02010,078,111 - 10,079,422UniSTSRnor5.0
RGSC_v3.4206,538,594 - 6,539,905UniSTSRGSC3.4
Celera207,914,613 - 7,915,924UniSTS
Cytogenetic Map20p12UniSTS
MARC_45800-45801:1102973340:2  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0207,880,394 - 7,880,930NCBIRnor6.0
Rnor_5.02010,080,684 - 10,081,220UniSTSRnor5.0
RGSC_v3.4206,541,167 - 6,541,703UniSTSRGSC3.4
Celera207,917,186 - 7,917,722UniSTS
Cytogenetic Map20p12UniSTS
UniSTS:496033  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0207,879,022 - 7,880,439NCBIRnor6.0
Rnor_5.02010,079,312 - 10,080,729UniSTSRnor5.0
RGSC_v3.4206,539,795 - 6,541,212UniSTSRGSC3.4
Celera207,915,814 - 7,917,231UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124652101Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125653396Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20127357423Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20128375393Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20128375393Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20128375393Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20128375393Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20128375393Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20133300419Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20137550487Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20137550487Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20340211127968216Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20403911318872273Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20403911318872273Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2048554689899946Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RChigh CD8 T cell count to CD45RClow CD8 T cell count ratio (CMO:0001990)20485546810800530Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20485547515050565Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20587544818739210Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:210
Count of miRNA genes:129
Interacting mature miRNAs:152
Transcripts:ENSRNOT00000042539
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 18 4 4 1 4 1 11 18 16 2
Low 25 53 37 18 37 8 10 63 17 25 9 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000042539   ⟹   ENSRNOP00000045974
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl207,818,289 - 7,883,482 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083109   ⟹   ENSRNOP00000069522
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl207,821,755 - 7,885,333 (+)Ensembl
RefSeq Acc Id: NM_013141   ⟹   NP_037273
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2206,298,785 - 6,363,968 (+)NCBI
Rnor_6.0207,818,289 - 7,883,482 (+)NCBI
Rnor_5.02010,018,464 - 10,083,772 (+)NCBI
RGSC_v3.4206,479,108 - 6,544,255 (+)RGD
Celera207,855,191 - 7,920,274 (+)RGD
Sequence:
RefSeq Acc Id: XM_006256166   ⟹   XP_006256228
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2206,301,691 - 6,363,970 (+)NCBI
Rnor_6.0207,821,735 - 7,883,482 (+)NCBI
Rnor_5.02010,018,464 - 10,083,772 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006256167   ⟹   XP_006256229
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2206,332,472 - 6,363,970 (+)NCBI
Rnor_6.0207,853,471 - 7,883,482 (+)NCBI
Rnor_5.02010,018,464 - 10,083,772 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006256168   ⟹   XP_006256230
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2206,344,311 - 6,363,970 (+)NCBI
Rnor_6.0207,862,656 - 7,883,482 (+)NCBI
Rnor_5.02010,018,464 - 10,083,772 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_037273   ⟸   NM_013141
- UniProtKB: Q99ND3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256228   ⟸   XM_006256166
- Peptide Label: isoform X1
- UniProtKB: Q99ND3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256229   ⟸   XM_006256167
- Peptide Label: isoform X1
- UniProtKB: Q99ND3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256230   ⟸   XM_006256168
- Peptide Label: isoform X1
- UniProtKB: Q99ND3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000045974   ⟸   ENSRNOT00000042539
RefSeq Acc Id: ENSRNOP00000069522   ⟸   ENSRNOT00000083109
Protein Domains
NR LBD   Nuclear receptor

Transcriptome

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

Promoters
RGD ID:13701458
Promoter ID:EPDNEW_R11981
Type:initiation region
Name:Ppard_1
Description:peroxisome proliferator-activated receptor delta
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_6.0207,818,217 - 7,818,277EPDNEW

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)
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 (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:3370 AgrOrtholog
Ensembl Genes ENSRNOG00000000503 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000045974 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000069522 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000042539 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000083109 UniProtKB/TrEMBL
Gene3D-CATH 1.10.565.10 UniProtKB/TrEMBL
  3.30.50.10 UniProtKB/TrEMBL
InterPro 1Cnucl_rcpt UniProtKB/TrEMBL
  1Cnucl_rcpt_B UniProtKB/TrEMBL
  NHR_like_domain UniProtKB/TrEMBL
  Nucl_hrmn_rcpt_lig-bd_core UniProtKB/TrEMBL
  Str_hrmn_rcpt UniProtKB/TrEMBL
  Znf_hrmn_rcpt UniProtKB/TrEMBL
  Znf_NHR/GATA UniProtKB/TrEMBL
KEGG Report rno:25682 UniProtKB/TrEMBL
NCBI Gene 25682 ENTREZGENE
Pfam Hormone_recep UniProtKB/TrEMBL
  zf-C4 UniProtKB/TrEMBL
PharmGKB PPARD RGD
PhenoGen Ppard PhenoGen
PRINTS PROXISOMEPAR UniProtKB/TrEMBL
  PROXISOMPABR UniProtKB/TrEMBL
  STRDHORMONER UniProtKB/TrEMBL
  STROIDFINGER UniProtKB/TrEMBL
PROSITE NR_LBD UniProtKB/TrEMBL
  NUCLEAR_REC_DBD_1 UniProtKB/TrEMBL
  NUCLEAR_REC_DBD_2 UniProtKB/TrEMBL
SMART HOLI UniProtKB/TrEMBL
  ZnF_C4 UniProtKB/TrEMBL
Superfamily-SCOP Str_ncl_receptor UniProtKB/TrEMBL
UniProt Q99ND3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-15 Ppard  peroxisome proliferator-activated receptor delta  Ppard  peroxisome proliferator activated receptor delta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Ppard  peroxisome proliferator activated receptor delta    Peroxisome proliferator activator receptor, delta  Name updated 629478 APPROVED
2002-06-10 Ppard  Peroxisome proliferator activator receptor, delta      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in all tissues except adipose tissue; enriched in the digestive tract, kidney, heart, diaphragm, and esophagus 633659