Ppargc1a (PPARG coactivator 1 alpha) - Rat Genome Database

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Gene: Ppargc1a (PPARG coactivator 1 alpha) Rattus norvegicus
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Symbol: Ppargc1a
Name: PPARG coactivator 1 alpha
RGD ID: 620925
Description: Enables several functions, including alpha-tubulin binding activity; estrogen receptor binding activity; and peroxisome proliferator activated receptor binding activity. Involved in several processes, including cellular response to hexose stimulus; cellular response to organic cyclic compound; and regulation of smooth muscle cell proliferation. Located in several cellular components, including apical dendrite; cytosolic ribosome; and euchromatin. Used to study several diseases, including fatty liver disease (multiple); glucose metabolism disease (multiple); heart disease (multiple); neurodegenerative disease (multiple); and sciatic neuropathy. Biomarker of several diseases, including Huntington's disease; glucose metabolism disease (multiple); placental insufficiency; primary biliary cholangitis; and renal fibrosis. Human ortholog(s) of this gene implicated in several diseases, including macular degeneration; malignant fibrous histiocytoma; neurodegenerative disease (multiple); non-alcoholic fatty liver disease; and type 2 diabetes mellitus. Orthologous to human PPARGC1A (PPARG coactivator 1 alpha); PARTICIPATES IN aldosterone signaling pathway; mTOR signaling pathway; Huntington's disease pathway; INTERACTS WITH (+)-schisandrin B; (+)-taxifolin; (-)-epigallocatechin 3-gallate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LRPGC1; peroxisome proliferative activated receptor gamma coactivator 1; peroxisome proliferative activated receptor, gamma, coactivator 1; peroxisome proliferative activated receptor, gamma, coactivator 1 alpha; peroxisome proliferator-activated receptor gamma coactivator 1-alpha; peroxisome proliferator-activated receptor gamma, coactivator 1 alpha; PGC-1-alpha; PGC-1alpha; PGC-1v; PGCvf; PGCvf-1; PGCvf1; PPAR gamma coactivator 1alpha variant form-1; PPAR-gamma coactivator 1-alpha; PPARGC-1-alpha; Ppargc1; Ppargc1a-vf1
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
mRatBN7.21458,860,752 - 59,516,525 (+)NCBImRatBN7.2
Rnor_6.0 Ensembl1463,095,720 - 63,187,009 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01463,095,291 - 63,190,688 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01463,182,479 - 63,286,252 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41464,278,115 - 64,370,912 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11464,280,505 - 64,373,303 (+)NCBI
Celera1458,516,257 - 58,607,916 (+)NCBICelera
Cytogenetic Map14q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
abdominal obesity-metabolic syndrome  (IEP)
acute kidney failure  (ISO)
age related macular degeneration  (ISS)
Albuminuria  (ISO)
Alzheimer's disease  (IDA,ISO)
amblyopia  (IEP)
amyotrophic lateral sclerosis  (ISO)
Bowen's Disease  (ISO)
Brain Injuries  (IEP,ISO)
Cardiomegaly  (IEP,ISO)
cardiomyopathy  (ISS)
cardiovascular system disease  (ISO)
Carotid Artery Injuries  (IDA,ISO)
chronic kidney disease  (ISO)
chronic obstructive pulmonary disease  (ISO)
colitis  (IDA)
congenital hypothyroidism  (IEP)
congestive heart failure  (ISO)
Diabetic Nephropathies  (ISO)
diabetic retinopathy  (IDA,IEP)
dilated cardiomyopathy  (IDA)
Diseases of the Aged  (IEP)
Experimental Diabetes Mellitus  (IDA,IEP,IMP,ISO)
fatty liver disease  (IDA,IEP,ISO)
Fetal Growth Retardation  (IEP)
glucose intolerance  (ISO)
heart disease  (IDA)
Huntington's disease  (IDA,IEP,ISO)
hyperglycemia  (IDA,IEP,ISO)
hyperthyroidism  (IEP)
Insulin Resistance  (IEP,ISO)
Kearns-Sayre syndrome  (ISO)
kidney cancer  (ISO)
kidney failure  (IDA)
Kidney Reperfusion Injury  (IDA)
Left Ventricular Hypertrophy  (ISO)
Lewy body dementia  (ISO)
macular degeneration  (ISO)
malignant fibrous histiocytoma  (ISO)
melanoma  (ISO)
Metabolic Syndrome  (IEP)
Muscular Dystrophy, Animal  (ISO)
myocardial infarction  (IEP,ISO)
Myocardial Reperfusion Injury  (ISO)
nephrotic syndrome  (IEP)
neuronal ceroid lipofuscinosis 1  (ISO)
non-alcoholic fatty liver disease  (IDA,ISO)
obesity  (IDA,IEP,ISO)
Parkinson's disease  (ISO)
Parkinsonism  (ISO)
placental insufficiency  (IEP)
prediabetes syndrome  (IEP)
primary biliary cholangitis  (IEP)
pulmonary emphysema  (ISO)
renal fibrosis  (IEP)
Right Ventricular Hypertrophy  (IEP)
Sarcopenia  (IEP)
schizophrenia  (ISO)
sciatic neuropathy  (IDA)
Sepsis  (IEP)
Sleep Initiation and Maintenance Disorders  (ISO)
Spinal Cord Injuries  (IDA)
Takotsubo Cardiomyopathy  (IEP)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (IDA,IEP,ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-artemisinin  (ISO)
(+)-catechin  (ISO)
(+)-schisandrin B  (EXP)
(+)-taxifolin  (EXP)
(-)-epigallocatechin 3-gallate  (EXP,ISO)
(20S)-ginsenoside Rg3  (EXP)
(R)-adrenaline  (EXP)
(R)-lipoic acid  (EXP,ISO)
(R)-noradrenaline  (EXP,ISO)
(S)-nicotine  (EXP,ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-dithiothreitol  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
1-stearoyl-2-arachidonoyl-sn-glycerol  (ISO)
11-deoxycorticosterone  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
1D-myo-inositol 1-phosphate  (ISO)
1H-[1,2,4]oxadiazolo[4,3-a]quinoxalin-1-one  (EXP,ISO)
1H-pyrazole  (ISO)
2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-amino-2-deoxy-D-glucopyranose  (EXP,ISO)
2-butoxyethanol  (ISO)
2-chloroethanol  (ISO)
3',5'-cyclic AMP  (EXP,ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5-triiodo-L-thyronine  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4,6-dioxoheptanoic acid  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-phenylbutyric acid  (EXP,ISO)
5-(2-chloroethyl)-4-methylthiazole  (ISO)
5-aminoimidazole-4-carboxamide  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-methyl-4-oxido-2-pyrazin-4-iumcarboxylic acid  (ISO)
6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxamide  (EXP)
6-propyl-2-thiouracil  (EXP)
8-bromo-3',5'-cyclic GMP  (ISO)
9-cis-retinoic acid  (ISO)
acadesine  (EXP,ISO)
acarbose  (ISO)
acetamide  (EXP)
acrylamide  (ISO)
adenosine  (ISO)
adenosine 5'-monophosphate  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
AICA ribonucleotide  (EXP,ISO)
albuterol  (ISO)
aldehydo-D-glucosamine  (EXP,ISO)
aldehydo-D-glucose  (EXP,ISO)
aldosterone  (EXP)
all-trans-retinal  (ISO)
all-trans-retinoic acid  (ISO)
all-trans-retinol  (ISO)
alloxan  (EXP)
allyl isothiocyanate  (ISO)
alpha,alpha-trehalose  (ISO)
alpha-D-galactose  (EXP)
aminoguanidine  (EXP,ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (EXP,ISO)
asiatic acid  (ISO)
aspartame  (ISO)
atorvastatin calcium  (EXP,ISO)
atrazine  (EXP,ISO)
benfotiamine  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[ghi]perylene  (ISO)
berberine  (ISO)
beta-D-glucosamine  (EXP,ISO)
Betanin  (EXP)
bezafibrate  (ISO)
biotin  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
bosentan  (ISO)
bromobenzene  (EXP)
bucladesine  (ISO)
buta-1,3-diene  (ISO)
butan-1-ol  (ISO)
butan-2-one  (ISO)
butanal  (ISO)
Butylbenzyl phthalate  (ISO)
C60 fullerene  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
calcitriol  (EXP,ISO)
capsaicin  (EXP,ISO)
captan  (ISO)
carbamazepine  (ISO)
carbon monoxide  (EXP,ISO)
carbon nanotube  (ISO)
carfilzomib  (ISO)
carvedilol  (EXP)
casticin  (ISO)
Chicoric acid  (EXP)
CHIR 99021  (ISO)
chlormidazole  (ISO)
chloroprene  (ISO)
chlorpyrifos  (ISO)
cholate  (EXP)
choline  (ISO)
chromium(6+)  (ISO)
ciglitazone  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (EXP,ISO)
clenbuterol  (EXP,ISO)
clofibrate  (ISO)
cobalt dichloride  (EXP)
colforsin daropate hydrochloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
cortisol  (ISO)
cortisone  (ISO)
creatine  (ISO)
crocidolite asbestos  (ISO)
curcumin  (EXP)
cyclosporin A  (EXP,ISO)
cyproconazole  (EXP)
D-glucose  (EXP,ISO)
D-glucurono-6,3-lactone  (ISO)
dapagliflozin  (EXP)
DDE  (ISO)
DDT  (ISO)
decanoic acid  (ISO)
dehydroepiandrosterone  (EXP)
Delta(9)-tetrahydrocannabinolic acid  (ISO)
dexamethasone  (EXP,ISO)
dextran sulfate  (EXP)
Di-n-hexyl phthalate  (EXP)
diarsenic trioxide  (EXP,ISO)
dibutyl phthalate  (EXP,ISO)
dichloroacetic acid  (ISO)
dichloromethane  (ISO)
diclofenac  (ISO)
diethylstilbestrol  (ISO)
dihydrofolic acid  (ISO)
dioxygen  (EXP,ISO)
disodium selenite  (ISO)
dodecanoic acid  (ISO)
dorsomorphin  (EXP,ISO)
doxorubicin  (EXP,ISO)
edaravone  (EXP)
elemental selenium  (ISO)
ellagic acid  (ISO)
enalapril  (EXP)
endosulfan  (EXP)
enilconazole  (ISO)
epoxiconazole  (EXP)
Erythropoietin  (ISO)
ethanol  (EXP,ISO)
etoposide  (ISO)
farnesol  (EXP)
fenofibrate  (ISO)
fenpyroximate  (ISO)
ferulic acid  (EXP,ISO)
flavonoids  (ISO)
fluoxastrobin  (ISO)
folic acid  (ISO)
folpet  (ISO)
fructose  (EXP,ISO)
fulvestrant  (EXP,ISO)
galactose  (EXP)
gamma-hexachlorocyclohexane  (ISO)
Genipin  (ISO)
ginsenoside Rg2  (ISO)
glucagon  (EXP)
glucose  (EXP,ISO)
glutathione  (ISO)
GW 1929  (ISO)
GW 501516  (ISO)
harmine  (ISO)
hemin  (EXP)
herbicide  (ISO)
hesperidin  (EXP)
hexadecanoic acid  (EXP,ISO)
Honokiol  (ISO)
hydrogen peroxide  (EXP,ISO)
icariin  (EXP,ISO)
ICI 118551  (ISO)
imidacloprid  (ISO)
indole-3-methanol  (EXP)
indometacin  (ISO)
ionomycin  (EXP)
isobutanol  (ISO)
isoniazide  (ISO)
isoprenaline  (EXP)
isoxazoles  (ISO)
kaempferol  (ISO)
ketotifen  (ISO)
kresoxim-methyl  (ISO)
L-1,4-dithiothreitol  (ISO)
L-ascorbic acid  (ISO)
L-glutamic acid  (ISO)
L-methionine  (EXP)
lead diacetate  (ISO)
leflunomide  (ISO)
Licarin A  (ISO)
limonene  (ISO)
linagliptin  (ISO)
linoleic acid  (EXP,ISO)
lipoic acid  (EXP,ISO)
lipopolysaccharide  (EXP,ISO)
liraglutide  (ISO)
losartan  (EXP)
lovastatin  (ISO)
luzindole  (ISO)
LY294002  (EXP,ISO)
Magnolol  (EXP)
malic acid  (ISO)
malonic acid  (ISO)
manganese atom  (EXP)
manganese(0)  (EXP)
manganese(II) chloride  (EXP)
mangiferin  (ISO)
melatonin  (EXP,ISO)
meldonium  (EXP,ISO)
metformin  (ISO)
methamphetamine  (ISO)
methyl methanesulfonate  (ISO)
methylglyoxal  (EXP,ISO)
metoprolol  (EXP)
monascin  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monosodium L-glutamate  (EXP,ISO)
myo-inositol hexakisphosphate  (ISO)
N(6)-butyryl-cAMP  (EXP)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
naringin  (EXP)
nebivolol  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
nicotinamide  (EXP,ISO)
nicotine  (EXP,ISO)
nicotinic acid  (ISO)
nitrites  (EXP)
nitrogen dioxide  (ISO)
nitroprusside  (ISO)
NSC 23766  (ISO)
O-acetyl-L-carnitine  (ISO)
octadecanoic acid  (ISO)
olanzapine  (EXP)
oleic acid  (ISO)
orientin  (ISO)
oxaloacetic acid  (ISO)
oxidopamine  (ISO)
ozone  (EXP)
paracetamol  (ISO)
paraquat  (EXP,ISO)
pentachlorophenol  (ISO)
perfluorododecanoic acid  (EXP)
perfluorohexanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP,ISO)
peroxynitrous acid  (EXP)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
picloram  (ISO)
picoxystrobin  (ISO)
pioglitazone  (EXP,ISO)
pirinixic acid  (ISO)
platycodin D  (ISO)
potassium chloride  (EXP)
potassium dichromate  (EXP,ISO)
prazosin  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
prochloraz  (EXP)
progesterone  (EXP,ISO)
propiconazole  (ISO)
propionic acid  (ISO)
propranolol  (ISO)
prostaglandin D2  (ISO)
prostaglandin I2  (ISO)
pterostilbene  (ISO)
puerarin  (EXP)
pyridaben  (ISO)
pyridoxine  (EXP,ISO)
pyrroloquinoline quinone  (EXP,ISO)
pyruvic acid  (ISO)
quercetin  (EXP,ISO)
reactive oxygen species  (EXP)
rebaudioside A  (ISO)
resveratrol  (EXP,ISO)
riboflavin  (ISO)
rifampicin  (ISO)
rotenone  (EXP,ISO)
S-adenosyl-L-homocysteine  (ISO)
Salmeterol xinafoate  (ISO)
Salvianolic acid A  (EXP,ISO)
salvianolic acid B  (EXP)
SB 431542  (ISO)
SB-239063  (EXP)
selenium atom  (ISO)
silicon dioxide  (ISO)
sirolimus  (EXP,ISO)
sirtinol  (EXP,ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP,ISO)
sodium hydrogensulfite  (EXP)
splitomicin  (EXP)
staurosporine  (ISO)
steviol  (ISO)
stevioside  (ISO)
streptozocin  (EXP,ISO)
sulforaphane  (ISO)
sulfur dioxide  (EXP)
sunitinib  (ISO)
T-2 toxin  (EXP,ISO)
tamoxifen  (ISO)
taurine  (EXP,ISO)
tauroursodeoxycholic acid  (EXP,ISO)
telmisartan  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP,ISO)
testosterone enanthate  (EXP)
tetrachloromethane  (EXP)
tetradecanoic acid  (ISO)
tetraphene  (ISO)
titanium dioxide  (ISO)
topotecan  (ISO)
trichlopyr  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
trifloxystrobin  (ISO)
trilobatin  (EXP)
triphenylstannane  (EXP,ISO)
Triptolide  (ISO)
troglitazone  (EXP,ISO)
tunicamycin  (ISO)
UDP-alpha-D-glucuronic acid  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vorinostat  (ISO)
ziram  (EXP)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adaptive thermogenesis  (IEP)
adipose tissue development  (ISO)
aging  (IEP)
androgen metabolic process  (IEP)
autophagy of mitochondrion  (IEP)
cellular response to caffeine  (IEP)
cellular response to estradiol stimulus  (IEP)
cellular response to fatty acid  (IEP)
cellular response to follicle-stimulating hormone stimulus  (IDA)
cellular response to fructose stimulus  (IEP)
cellular response to glucose stimulus  (IEP)
cellular response to hypoxia  (IEP)
cellular response to interleukin-6  (IEP)
cellular response to ionomycin  (IEP)
cellular response to lipopolysaccharide  (IEP)
cellular response to nitrite  (IEP)
cellular response to oxidative stress  (ISO,ISS)
cellular response to potassium ion  (IEP)
cellular response to resveratrol  (IEP)
cellular response to thyroid hormone stimulus  (IDA,IEP)
cellular response to transforming growth factor beta stimulus  (IDA)
cellular response to tumor necrosis factor  (IEP)
cerebellum development  (IEP)
circadian regulation of gene expression  (ISO,ISS)
energy homeostasis  (ISO,ISS)
fatty acid oxidation  (IEP)
flavone metabolic process  (IEP)
forebrain development  (IEP)
galactose metabolic process  (IEP)
gluconeogenesis  (IEP)
mitochondrion organization  (IEP,IMP)
negative regulation of glycolytic process  (IMP)
negative regulation of mitochondrial fission  (IMP)
negative regulation of neuron apoptotic process  (ISO,ISS)
negative regulation of neuron death  (ISO,ISS)
negative regulation of protein phosphorylation  (IMP)
negative regulation of signaling receptor activity  (IMP)
negative regulation of smooth muscle cell migration  (IMP)
negative regulation of smooth muscle cell proliferation  (IMP,ISO)
positive regulation of ATP biosynthetic process  (ISO,ISS)
positive regulation of cellular metabolic process  (IMP)
positive regulation of cellular respiration  (ISO)
positive regulation of cold-induced thermogenesis  (ISO,ISS)
positive regulation of DNA-binding transcription factor activity  (IBA,ISO,ISS)
positive regulation of fatty acid oxidation  (IMP)
positive regulation of gene expression  (ISO)
positive regulation of glomerular visceral epithelial cell apoptotic process  (IMP)
positive regulation of mitochondrial DNA metabolic process  (ISO)
positive regulation of mitochondrion organization  (ISO,ISS)
positive regulation of muscle tissue development  (ISO)
positive regulation of progesterone biosynthetic process  (IMP)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of transcription by RNA polymerase II  (IBA,IMP,ISO,ISS)
positive regulation of transcription, DNA-templated  (IMP,ISO)
regulation of circadian rhythm  (ISO,ISS)
regulation of NMDA receptor activity  (IMP)
regulation of transcription, DNA-templated  (ISO,ISS)
respiratory electron transport chain  (ISO,ISS)
response to activity  (IDA,IEP)
response to cold  (IEP)
response to dietary excess  (ISO)
response to electrical stimulus  (IEP)
response to electrical stimulus involved in regulation of muscle adaptation  (IEP)
response to epinephrine  (IEP)
response to fructose  (IEP)
response to hypoxia  (IEP)
response to ischemia  (IEP)
response to leucine  (IEP)
response to metformin  (IEP)
response to methionine  (IEP)
response to muscle activity  (IEP,ISO,ISS)
response to norepinephrine  (IEP)
response to nutrient levels  (IEP)
response to organic cyclic compound  (IEP)
response to reactive oxygen species  (IEP)
response to starvation  (IEP)
response to thyroid hormone  (IEP)
response to xenobiotic stimulus  (IEP)
skeletal muscle atrophy  (IEP)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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Genomics

Comparative Map Data
Ppargc1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21458,860,752 - 59,516,525 (+)NCBImRatBN7.2
Rnor_6.0 Ensembl1463,095,720 - 63,187,009 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01463,095,291 - 63,190,688 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01463,182,479 - 63,286,252 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41464,278,115 - 64,370,912 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11464,280,505 - 64,373,303 (+)NCBI
Celera1458,516,257 - 58,607,916 (+)NCBICelera
Cytogenetic Map14q11NCBI
PPARGC1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl423,755,041 - 23,904,089 (-)EnsemblGRCh38hg38GRCh38
GRCh38423,792,021 - 24,472,905 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37423,793,644 - 24,474,528 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36423,402,742 - 23,500,798 (-)NCBINCBI36hg18NCBI36
Build 34423,469,913 - 23,567,969NCBI
Celera424,243,466 - 24,341,439 (-)NCBI
Cytogenetic Map4p15.2NCBI
HuRef423,138,364 - 23,236,560 (-)NCBIHuRef
CHM1_1423,791,582 - 23,889,913 (-)NCBICHM1_1
Ppargc1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39551,611,591 - 52,273,337 (-)NCBIGRCm39mm39
GRCm39 Ensembl551,611,592 - 51,725,068 (-)Ensembl
GRCm38551,454,249 - 52,115,853 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl551,454,250 - 51,567,726 (-)EnsemblGRCm38mm10GRCm38
MGSCv37551,845,488 - 51,945,160 (-)NCBIGRCm37mm9NCBIm37
MGSCv36551,745,901 - 51,842,109 (-)NCBImm8
Celera548,830,811 - 48,929,055 (-)NCBICelera
Cytogenetic Map5C1NCBI
Ppargc1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554801,078,322 - 1,188,435 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955480543,397 - 1,188,376 (+)NCBIChiLan1.0ChiLan1.0
PPARGC1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1423,483,377 - 24,160,574 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl423,483,377 - 23,581,212 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0418,196,431 - 18,876,889 (-)NCBIMhudiblu_PPA_v0panPan3
PPARGC1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1385,645,942 - 86,284,570 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl386,016,140 - 86,281,269 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha388,158,508 - 88,796,824 (+)NCBI
ROS_Cfam_1.0386,620,570 - 87,261,415 (+)NCBI
UMICH_Zoey_3.1385,752,591 - 86,391,823 (+)NCBI
UNSW_CanFamBas_1.0385,858,991 - 86,497,911 (+)NCBI
UU_Cfam_GSD_1.0386,243,892 - 86,883,362 (+)NCBI
Ppargc1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528551,179,331 - 51,786,516 (+)NCBI
SpeTri2.0NW_0049364774,881,230 - 5,488,208 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPARGC1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl817,841,844 - 17,961,909 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1817,841,844 - 18,527,953 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Pig Cytomap8p2.1-p2.3NCBI
PPARGC1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12725,882,385 - 26,563,530 (+)NCBI
ChlSab1.1 Ensembl2726,465,499 - 26,564,582 (+)Ensembl
Vero_WHO_p1.0NW_02366604772,634,061 - 73,114,795 (+)NCBI
Ppargc1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247557,826,219 - 8,460,746 (+)NCBI

Position Markers
MARC_49176-49177:1118326844:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21459,495,697 - 59,496,182 (+)MAPPERmRatBN7.2
Rnor_6.01463,169,863 - 63,170,347NCBIRnor6.0
Rnor_5.01463,269,140 - 63,269,624UniSTSRnor5.0
RGSC_v3.41464,352,392 - 64,352,876UniSTSRGSC3.4
Celera1458,590,965 - 58,591,449UniSTS
Cytogenetic Map14q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143259392686191589Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)144163756980841518Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14975643572854397Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1461993178106993178Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)146187332388870994Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)142018938665189386Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1443910761105074364Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143316331673391571Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1451818462105074364Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)144031561085315610Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)144031561085315610Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)144031561085315610Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)144031561085315610Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1460980905105980905Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1460980905105980905Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)142145756566457565Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:35
Count of miRNA genes:28
Interacting mature miRNAs:35
Transcripts:ENSRNOT00000006071
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 41 1 1 7 8 42 35 2 4 7
Low 3 2 56 41 15 41 1 3 32 38 7 1
Below cutoff 3 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_031347 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599390 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599391 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092488 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092489 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092490 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092491 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092493 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB025784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY237127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY382577 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213484 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  LC227803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000006071   ⟹   ENSRNOP00000006071
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1463,095,720 - 63,187,009 (+)Ensembl
RefSeq Acc Id: NM_031347   ⟹   NP_112637
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21459,421,606 - 59,512,656 (+)NCBI
Rnor_6.01463,095,827 - 63,186,819 (+)NCBI
Rnor_5.01463,182,479 - 63,286,252 (+)NCBI
RGSC_v3.41464,278,115 - 64,370,912 (+)RGD
Celera1458,516,257 - 58,607,916 (+)RGD
Sequence:
RefSeq Acc Id: XM_039092488   ⟹   XP_038948416
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21459,421,851 - 59,516,525 (+)NCBI
RefSeq Acc Id: XM_039092489   ⟹   XP_038948417
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21459,421,414 - 59,516,525 (+)NCBI
RefSeq Acc Id: XM_039092490   ⟹   XP_038948418
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21459,407,506 - 59,516,525 (+)NCBI
RefSeq Acc Id: XM_039092491   ⟹   XP_038948419
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21458,860,752 - 59,516,525 (+)NCBI
RefSeq Acc Id: XM_039092492   ⟹   XP_038948420
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21459,421,852 - 59,516,525 (+)NCBI
RefSeq Acc Id: XM_039092493   ⟹   XP_038948421
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21459,421,858 - 59,516,525 (+)NCBI
RefSeq Acc Id: XM_039092494   ⟹   XP_038948422
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21459,421,844 - 59,516,525 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_112637   ⟸   NM_031347
- UniProtKB: Q9QYK2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000006071   ⟸   ENSRNOT00000006071
RefSeq Acc Id: XP_038948419   ⟸   XM_039092491
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038948418   ⟸   XM_039092490
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038948417   ⟸   XM_039092489
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038948422   ⟸   XM_039092494
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038948416   ⟸   XM_039092488
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038948420   ⟸   XM_039092492
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038948421   ⟸   XM_039092493
- Peptide Label: isoform X6
Protein Domains
RRM

Transcriptome

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

Promoters
RGD ID:13699342
Promoter ID:EPDNEW_R9866
Type:multiple initiation site
Name:Ppargc1a_1
Description:PPARG coactivator 1 alpha
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_6.01463,095,778 - 63,095,838EPDNEW

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)
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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/Gcrc (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/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
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:620925 AgrOrtholog
Ensembl Genes ENSRNOG00000004473 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000006071 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000006071 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot
  PGC-1 UniProtKB/Swiss-Prot
  PGC-1alpha UniProtKB/Swiss-Prot
  PPARGC1A_RRM UniProtKB/Swiss-Prot
  RBD_domain_sf UniProtKB/Swiss-Prot
  RRM_dom UniProtKB/Swiss-Prot
KEGG Report rno:83516 UniProtKB/Swiss-Prot
NCBI Gene 83516 ENTREZGENE
PANTHER PTHR15528 UniProtKB/Swiss-Prot
  PTHR15528:SF10 UniProtKB/Swiss-Prot
Pfam RRM_1 UniProtKB/Swiss-Prot
PhenoGen Ppargc1a PhenoGen
PROSITE RRM UniProtKB/Swiss-Prot
SMART RRM UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot
UniProt PRGC1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-03 Ppargc1a  PPARG coactivator 1 alpha  Ppargc1a  peroxisome proliferator-activated receptor gamma, coactivator 1 alpha  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-24 Ppargc1a  peroxisome proliferator-activated receptor gamma, coactivator 1 alpha  Ppargc1a  peroxisome proliferative activated receptor, gamma, coactivator 1 alpha  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Ppargc1a  peroxisome proliferative activated receptor, gamma, coactivator 1 alpha  Ppargc1  peroxisome proliferative activated receptor, gamma, coactivator 1  Symbol and Name updated 1299863 APPROVED
2002-08-07 Ppargc1  peroxisome proliferative activated receptor, gamma, coactivator 1      Symbol and Name status set to provisional