Ppargc1b (PPARG coactivator 1 beta)

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Gene: Ppargc1b (PPARG coactivator 1 beta) Rattus norvegicus

Analyze

Symbol:

Ppargc1b

Name:

PPARG coactivator 1 beta

RGD ID:

727948

Description:

Predicted to have AF-2 domain binding activity; estrogen receptor binding activity; and nuclear receptor coactivator activity. Involved in response to cAMP and response to glucocorticoid. Predicted to localize to cytosol; mediator complex; and nucleoplasm. Human ortholog(s) of this gene implicated in obesity. Orthologous to human PPARGC1B (PPARG coactivator 1 beta); INTERACTS WITH (R)-lipoic acid; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

Perc; peroxisome proliferative activated receptor, gamma, coactivator 1 beta; peroxisome proliferator-activated receptor gamma coactivator 1 beta; peroxisome proliferator-activated receptor gamma coactivator 1-beta; peroxisome proliferator-activated receptor gamma coactivator 1beta-2a; peroxisome proliferator-activated receptor gamma, coactivator 1 beta; PGC-1-beta; PGC1beta; PPAR-gamma coactivator 1-beta; PPARGC-1-beta

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 Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	18	54,758,891 - 54,861,103 (-)	NCBI
Rnor_6.0 Ensembl	18	56,626,712 - 56,728,968 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	18	56,626,725 - 56,650,524 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	18	55,857,439 - 55,880,661 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	18	57,277,749 - 57,301,024 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	18	57,349,991 - 57,451,796 (-)	NCBI
Celera	18	52,911,177 - 52,934,708 (-)	NCBI		Celera
Cytogenetic Map	18	q12.1	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Breast Neoplasms (ISO)

COVID-19 (ISO)

familial hyperlipidemia (ISO)

Hereditary Neoplastic Syndromes (ISO)

Insulin Resistance (ISO)

Neurodevelopmental Disorders (ISO)

obesity (ISO)

Sepsis (IEP)

type 2 diabetes mellitus (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(R)-lipoic acid (EXP)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (EXP,ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (EXP)

amiodarone (ISO)

ammonium chloride (EXP)

arsane (ISO)

arsenic atom (ISO)

atorvastatin calcium (EXP,ISO)

atrazine (EXP)

belinostat (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (EXP,ISO)

bisphenol A (EXP,ISO)

buta-1,3-diene (ISO)

cadmium atom (EXP)

carbon nanotube (ISO)

ciguatoxin CTX1B (ISO)

cisplatin (ISO)

colforsin daropate hydrochloride (ISO)

copper atom (ISO)

copper(0) (ISO)

crocidolite asbestos (ISO)

diclofenac (ISO)

diethyl maleate (EXP)

dioxygen (ISO)

disodium selenite (ISO)

dorsomorphin (ISO)

duvoglustat (ISO)

endosulfan (EXP)

entinostat (ISO)

ethanol (ISO)

etoposide (ISO)

formaldehyde (ISO)

genistein (ISO)

hydrogen peroxide (ISO)

isoprenaline (ISO)

linoleic acid (EXP)

lipoic acid (EXP)

lipopolysaccharide (ISO)

meldonium (EXP)

menadione (ISO)

mono(2-ethylhexyl) phthalate (ISO)

N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal (ISO)

N-methyl-4-phenylpyridinium (ISO)

N-nitrosodiethylamine (EXP,ISO)

oxaloacetic acid (ISO)

panobinostat (ISO)

paracetamol (ISO)

perfluorooctanoic acid (ISO)

phenobarbital (ISO)

phosphatidylcholine (ISO)

phosphatidylethanolamine (ISO)

phytol (ISO)

phytosterols (ISO)

pirinixic acid (ISO)

propiconazole (ISO)

quercetin (EXP,ISO)

rotenone (EXP)

SB 431542 (ISO)

silicon dioxide (ISO)

sulforaphane (ISO)

sunitinib (ISO)

T-2 toxin (EXP)

tamoxifen (ISO)

testosterone enanthate (EXP)

tetrachloromethane (ISO)

thioacetamide (EXP)

trichostatin A (ISO)

tris(2-butoxyethyl) phosphate (ISO)

tunicamycin (ISO)

valproic acid (ISO)

very-low-density lipoprotein triglyceride (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

actin filament organization (ISO)

bone trabecula formation (ISO)

cellular response to reactive oxygen species (ISO)

intracellular estrogen receptor signaling pathway (ISO,ISS)

mitochondrial transcription (ISO)

negative regulation of transcription, DNA-templated (ISO)

ossification (ISO)

positive regulation of alkaline phosphatase activity (ISO)

positive regulation of bone resorption (ISO)

positive regulation of cold-induced thermogenesis (ISO,ISS)

positive regulation of DNA-binding transcription factor activity (IBA)

positive regulation of osteoclast differentiation (ISO)

positive regulation of phosphorylation (ISO)

positive regulation of transcription by RNA polymerase II (IBA,ISO,ISS)

positive regulation of transcription, DNA-templated (ISO)

regulation of transcription, DNA-templated (ISO,ISS)

response to cAMP (IEP)

response to glucocorticoid (IEP)

Cellular Component

cellular_component (ND)

cytosol (IEA,ISO)

mediator complex (ISO)

mitochondrion (IEA)

nucleoplasm (IEA,ISO)

nucleus (IBA,ISO,ISS)

Molecular Function

AF-2 domain binding (ISO,ISS)

estrogen receptor binding (ISO)

molecular_function (ND)

nuclear receptor coactivator activity (IBA,ISO,ISS)

protein binding (ISO)

RNA binding (IEA)

transcription coregulator activity (ISO)

transcription factor binding (IBA)

References

References - curated


1.	Andersen G, etal., J Med Genet. 2005 May;42(5):402-7.
2.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	Hoeks J, etal., Diabetologia. 2006 Oct;49(10):2419-26. Epub 2006 Aug 1.
4.	Lelliott CJ, etal., PLoS Biol. 2006 Nov;4(11):e369. doi: 10.1371/journal.pbio.0040369.
5.	Lin J, etal., J Biol Chem. 2003 Aug 15;278(33):30843-8. Epub 2003 Jun 13.
6.	Menconi MJ, etal., Am J Physiol Endocrinol Metab. 2010 Oct;299(4):E533-43. Epub 2010 Jul 20.
7.	MGD data from the GO Consortium
8.	NCBI rat LocusLink and RefSeq merged data October 15, 2003
9.	OMIM Disease Annotation Pipeline
10.	Park KS, etal., Diabet Med. 2006 Jun;23(6):635-42.
11.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12.	RGD automated import pipeline for gene-chemical interactions
13.	RGD comprehensive gene curation

Additional References at PubMed

PMID:11854298	PMID:12678921	PMID:15057822	PMID:17932310	PMID:19252502	PMID:19254570	PMID:19542216	PMID:21331471	PMID:22008020	PMID:23264620	PMID:23836911	PMID:27631411
PMID:30635067

Genomics

Comparative Map Data

Ppargc1b
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	18	54,758,891 - 54,861,103 (-)	NCBI
Rnor_6.0 Ensembl	18	56,626,712 - 56,728,968 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	18	56,626,725 - 56,650,524 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	18	55,857,439 - 55,880,661 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	18	57,277,749 - 57,301,024 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	18	57,349,991 - 57,451,796 (-)	NCBI
Celera	18	52,911,177 - 52,934,708 (-)	NCBI		Celera
Cytogenetic Map	18	q12.1	NCBI

PPARGC1B
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	5	149,730,298 - 149,855,022 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	5	149,730,302 - 149,857,861 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	5	149,109,873 - 149,234,585 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	149,090,057 - 149,207,474 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	5	149,090,056 - 149,207,460	NCBI
Celera	5	145,191,258 - 145,315,947 (+)	NCBI
Cytogenetic Map	5	q32	NCBI
HuRef	5	144,256,984 - 144,381,544 (+)	NCBI		HuRef
CHM1_1	5	148,542,243 - 148,667,243 (+)	NCBI		CHM1_1

Ppargc1b
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	18	61,424,516 - 61,533,846 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	18	61,431,207 - 61,533,502 (-)	Ensembl
GRCm38	18	61,291,445 - 61,400,756 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	18	61,298,136 - 61,400,431 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	18	61,457,790 - 61,560,085 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	18	61,423,505 - 61,525,800 (-)	NCBI			mm8
Celera	18	62,581,981 - 62,683,996 (-)	NCBI		Celera
Cytogenetic Map	18	E1	NCBI

Ppargc1b
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955415	4,644,998 - 4,757,093 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955415	4,638,057 - 4,756,885 (-)	NCBI	ChiLan1.0	ChiLan1.0

PPARGC1B
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	5	151,172,020 - 151,286,285 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	5	151,203,088 - 151,278,837 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	5	145,154,517 - 145,315,567 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

PPARGC1B
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	4	59,174,604 - 59,279,464 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	4	59,167,041 - 59,278,977 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Ppargc1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936504	5,099,334 - 5,198,279 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PPARGC1B
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	150,823,373 - 150,919,378 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	150,823,338 - 150,924,871 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	157,649,522 - 157,739,519 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PPARGC1B
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	23	52,337,802 - 52,462,553 (+)	NCBI
ChlSab1.1 Ensembl	23	52,428,052 - 52,455,089 (+)	Ensembl

Ppargc1b
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624774	9,056,138 - 9,178,645 (+)	NCBI

Position Markers

D18Chm35

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	18	56,648,393 - 56,648,590	NCBI	Rnor6.0
Rnor_5.0	18	55,878,530 - 55,878,727	UniSTS	Rnor5.0
RGSC_v3.4	18	57,298,893 - 57,299,090	UniSTS	RGSC3.4
Celera	18	52,932,504 - 52,932,774	UniSTS
Cytogenetic Map	18	q12.1	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2299160	Iddm35	Insulin dependent diabetes mellitus QTL 35	2.79		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	18	4407513	62570466	Rat
2313082	Bss85	Bone structure and strength QTL 85	0.8	0.0001	long bone metaphysis morphology trait (VT:0000133)	tibia midshaft total cross-sectional area (CMO:0001715)	18	14678852	59678852	Rat
1358358	Sradr6	Stress Responsive Adrenal Weight QTL 6	2.49		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	18	15539427	61499684	Rat
6903359	Bp355	Blood pressure QTL 355	3.6		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	18	15539671	61985648	Rat
2293708	Bss46	Bone structure and strength QTL 46	8.8	0.0001	lumbar vertebra morphology trait (VT:0010494)	lumbar vertebra cortical cross-sectional area (CMO:0001690)	18	15695872	68524999	Rat
1578661	Bss20	Bone structure and strength QTL 20	3.7		femur morphology trait (VT:0000559)	femoral neck cross-sectional area (CMO:0001697)	18	15695872	87080053	Rat
1578667	Bss21	Bone structure and strength QTL 21	3.5		femur morphology trait (VT:0000559)	femoral neck cortical cross-sectional area (CMO:0001702)	18	15695872	87080053	Rat
1358193	Emca2	Estrogen-induced mammary cancer QTL 2	1.6		mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	18	19031030	68436105	Rat
1600373	Mamtr6	Mammary tumor resistance QTL 6			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	18	20285758	87080053	Rat
7387267	Uae42	Urinary albumin excretion QTL 42		0.61	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	14	21639491	66639491	Rat
1331741	Bp232	Blood pressure QTL 232	3.59112		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	18	22603736	87074531	Rat
6903353	Bp353	Blood pressure QTL 353	2.8		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	18	22604764	61985648	Rat
1331733	Bp233	Blood pressure QTL 233	3.97196		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	25961026	81761656	Rat
2300157	Bmd66	Bone mineral density QTL 66	13.1	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	18	30533614	75533614	Rat
2300177	Bmd65	Bone mineral density QTL 65	19.7	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	18	30533614	75533614	Rat
2293704	Bss35	Bone structure and strength QTL 35	4.59	0.0002	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	18	30533614	75533614	Rat
9590318	Scort22	Serum corticosterone level QTL 22	7.64	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	18	31361341	76361341	Rat
1331754	Bp230	Blood pressure QTL 230	4.61609		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	31361341	76361341	Rat
9589816	Gluco68	Glucose level QTL 68	7.25	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	18	31361341	76361341	Rat
8694378	Bw157	Body weight QTL 157	3.59	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	18	31361341	76361341	Rat
738005	Anxrr11	Anxiety related response QTL 11	3.4		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	18	31608424	76608424	Rat
61383	Bp47	Blood pressure QTL 47	17.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	18	31728373	62570429	Rat
1331776	Bp225	Blood pressure QTL 225	2.829		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	18	32670352	61985812	Rat
1331774	Bp226	Blood pressure QTL 226	4.41065		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	32670352	61985812	Rat
1331742	Bp228	Blood pressure QTL 228	3.88752		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	32670352	61985812	Rat
1331798	Bp224	Blood pressure QTL 224	3.53873		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	32670352	61985812	Rat
1331727	Bp237	Blood pressure QTL 237	3.053		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	32670352	63897621	Rat
61429	Cia17	Collagen induced arthritis QTL 17	4.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	18	32670352	73016546	Rat
2303120	Mamtr8	Mammary tumor resistance QTL 8		0.001	mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	18	32670352	87080053	Rat
6903347	Bp350	Blood pressure QTL 350	4.4		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	32670473	61985648	Rat
631274	Sprol1	Serum protein level QTL 1	5.3		blood total protein amount (VT:0005567)	serum total protein level (CMO:0000661)	18	32704022	80696226	Rat
631518	Bw11	Body weight QTL 11	2.8		body mass (VT:0001259)	body weight (CMO:0000012)	18	38221919	83221919	Rat
61367	Iddm4	Insulin dependent diabetes mellitus QTL 4	2.33	0.0074	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	18	40375769	85375769	Rat
6893683	Bw110	Body weight QTL 110	2.7	0.002	body mass (VT:0001259)	body weight (CMO:0000012)	18	45002194	88201929	Rat
1598826	Anxrr20	Anxiety related response QTL 20	3.04		body movement coordination trait (VT:0005424)	number of rearing movements in an experimental apparatus (CMO:0001752)	18	46319476	88201929	Rat
1331806	Bp229	Blood pressure QTL 229	4.36484		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	48248877	59473805	Rat
1331736	Bp227	Blood pressure QTL 227	2.791		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	18	48248877	61985812	Rat
1331780	Bp238	Blood pressure QTL 238	3.269		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	48248877	61985812	Rat
6903345	Bp349	Blood pressure QTL 349	3.9		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	48249048	61985648	Rat
6903349	Bp351	Blood pressure QTL 351	3.5		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	48249048	61985648	Rat
6903351	Bp352	Blood pressure QTL 352	3.3		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	48249048	61985648	Rat
61360	Eaey	Experimental allergic encephalomyelitis QTL y	3		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis duration (CMO:0001424)	18	48519299	62570427	Rat
9589041	Epfw12	Epididymal fat weight QTL 12	17.08	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	18	49130920	88201929	Rat
8694432	Bw165	Body weight QTL 165	3.81	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	18	49130920	88201929	Rat
8694366	Abfw8	Abdominal fat weight QTL 8	6.38	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	18	49130920	88201929	Rat
2303571	Bw92	Body weight QTL 92	3		body mass (VT:0001259)	body weight (CMO:0000012)	18	51375816	88201929	Rat
2303584	Gluco55	Glucose level QTL 55	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	18	51375816	88201929	Rat
7411719	Strs5	Sensitivity to stroke QTL 5	9.4		cerebrum integrity trait (VT:0010549)	percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)	18	51609032	67502266	Rat
2293658	Bmd23	Bone mineral density QTL 23	7.3	0.0001	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	18	53033494	68524999	Rat
738008	Hcar14	Hepatocarcinoma resistance QTL 14	4.3		liver integrity trait (VT:0010547)	liver nonremodeling tumorous lesion number (CMO:0001462)	18	53033494	87080053	Rat
1331730	Scl27	Serum cholesterol level QTL 27	3.826		blood HDL cholesterol amount (VT:0000184)	serum high density lipoprotein cholesterol level (CMO:0000361)	18	53861252	61985812	Rat
1331752	Bw27	Body weight QTL 27	2.963		body mass (VT:0001259)	body weight (CMO:0000012)	18	53861252	67502266	Rat
1359020	Ppulsi2	Prepulse inhibition QTL 2	2.71		prepulse inhibition trait (VT:0003088)	acoustic startle response measurement (CMO:0001519)	18	53861252	77151443	Rat
1600375	Mcs22	Mammary carcinoma susceptibility QTL 22	3.3		mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	18	54108375	68819562	Rat
631509	Sald2	Serum aldosterone level QTL 2	2.9		blood aldosterone amount (VT:0005346)	serum aldosterone level (CMO:0000487)	18	54108375	71692768	Rat
2301417	Bp319	Blood pressure QTL 319		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	54108375	79575348	Rat
12880368	Bw187	Body weight QTL 187		0.045	body mass (VT:0001259)	body weight (CMO:0000012)	18	54108375	79575348	Rat
12904067	Cm122	Cardiac mass QTL 122		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	18	54108375	79575348	Rat
12904069	Cm123	Cardiac mass QTL 123		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	18	54108375	79575348	Rat
12904070	Cm124	Cardiac mass QTL 124		0.01	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	18	54108375	79575348	Rat
12904071	Am18	Aortic mass QTL 18		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	18	54108375	79575348	Rat
12904073	Kidm71	Kidney mass QTL 71		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	18	54108375	79575348	Rat
1300125	Rf26	Renal function QTL 26	3.2		urine potassium amount (VT:0010539)	urine potassium excretion rate (CMO:0000761)	18	54108474	67502122	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	176
Count of miRNA genes:	78
Interacting mature miRNAs:	83
Transcripts:	ENSRNOT00000023661, ENSRNOT00000066048
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

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

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

Expression

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		28	4		2		1	1	6	1	8		1
Low	3	15	53	41	17	41	7	10	68	34	33	11	7
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_176075	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC122967	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY188951	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473971	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000301	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000023661 ⟹ ENSRNOP00000023661

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	18	56,626,712 - 56,728,968 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000066048 ⟹ ENSRNOP00000058932

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	18	56,626,736 - 56,728,185 (-)	Ensembl

RefSeq Acc Id:

NM_176075 ⟹ NP_788264

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	18	54,758,891 - 54,861,103 (-)	NCBI
Rnor_6.0	18	56,626,725 - 56,650,524 (-)	NCBI
Rnor_5.0	18	55,857,439 - 55,880,661 (-)	NCBI
RGSC_v3.4	18	57,277,749 - 57,301,024 (-)	RGD
Celera	18	52,911,177 - 52,934,708 (-)	RGD

Sequence:

show sequence

ATGCAGGGGGAAGGGAAGGGTGGGGAGTCTGGAGAGGAACAGTTATGTGCTGACTTGCCAGAGC
TCGACCTCTCCCAGCTGGATGCCAGTGACTTCGACTCAGCCACGTGCTTTGGGGAGCTGCAGTG
GTGCCCGGAGACCTCAGAGACAGAGCCCAGCCAGTACAGCCCTGATGATTCCGAGTTCTTCCAG
ATTGACAGTGAGAATGAAGCTCTCTTGGCTGCGCTTACCAAGACCCTGGATGACATCCCCGAAG
ACGATGTGGGGCTGGCTGCCTTCCCAGGACTGGATGAAGGCGACACACCCTCCTGCACCCCAGC
TTCACCTGCTCCTTTATCTGTGCCCCCCAGCCCCGCCTTGGAGAGGCTTCTGTCCCCAGTGTCT
GAAGTGGATGAGCTTTCACTGCTGCAGAAGCTCCTCCTGGCCACATCCTCCCCAACAGCAAGCT
CTGATGCTCTGAAGGACGGGGCCACCTGGTCGCAGACCAGCCTCAGTTCCAGAAGTCAGCGGCC
TTGTGTCAAGGTGGATGGCACCCAGGACAAGAAGACCCCCATGCTACGGTCTCAGAGCCGGCCT
TGTACAGAACTGCATAAGCACCTCACTTCGGTGCTGCCCTGCCCCAGGGGAAAAGCCTGTTCCC
CACCTCCCCACCCAAGTCCTCAGCTCCTCTCCAAAGAGGATGAGGAGGTGGGAGAGGATTGCCC
AAGCCCCTGGCCAGCTCCAGCGTCTCCCCAAGACTCACTAGGACAGGACACGGCCAACCCCAAC
AGTGCCCAAGTTCCCAAGGACGACGTGAGGGCCATGGTACAGCTCATTCGCTACATGCATACCT
ACTGCCTGCCTCAGAGGAAGCTGCCCCAACGGGCCTCAGAGCCAATCCCCCAGTCCTGCAGCAG
CCCCTTGAGGAAGGTCCCACCCCGATCCCGGCAAACCCCCAAAGCCTTCTGGACTGAGTTCTCC
ATCCTAAGGGAACTTCTGGCCCAAGATATCCTCTGTGATGTTAGCAAGCCCTACCGCCTGGCCA
CACCTGTCTATGCTTCTCTCACACCCCAGTCCAGAACCAGGCCCCCCAAAGACAGTCAGGCCTC
CCCTGCCCACTCTGCCATGGCAGAAGAGGTGAGAATCACTGCTTCCCCCAAGAGCACTGGACCT
AGACCCAGCCTCCGTCCTCTGAGGCTAGAGGTGAAACGGGATGTCAACAAGCCTGCAAGGCAAA
AGCGGGAGGAAGATGAGGAGGAGGAAGAGGAAGAAGAAGAGGAAGAAGAAAAAGAGGATGAAGA
AGAGGAGTGGGGCAGGAAGAGACCAGGTCGTGGCCTGCCATGGACCAAACTAGGGAGGAAGATG
GACAGCTCTGTGTGCCCTGTGCGGCGCTCCAGGAGACTGAATCCAGAGCTGGGCCCTTGGCTGA
CATTCACTGATGAGCCCCTAGGTGCTCTACCCTCGATGTGCCTGGCTACAGAGACCCACGACCT
GGAAGAAGAGCTGGGCGGCCTCACAGACAGTAGTCAAGGCCAGCAGCTCCCCCTGGGATCCCAG
ATCCCCACCCTGGAAAGCCCCTGTGAAAGTGGGTGTGGGGACACAGATGAAGATCCAAGCTGCC
CGCGGCCCCCTTCCAGAGACTCCCCCAGGTGCCTCATGCTGGCCTTGTCACAAAGTGACCCTCT
TGGCAAGAAGAGCTTTGAGGAGTCCTTGACAGTGGAGCTTTGTGGCACAGCAGGACTCACTCCA
CCCACCACACCTCCATATAAGCCCATGGAGGAGGACCCCTTCAAGCAGGACACCAAGCACAGCC
CAGGCCAAGACACAGCTCCCAGCCTCCCTTCCCCTGAGACTCTTCAGCTCACAGCCACCCCAGG
GGCTTCCCACAAGCTGCCCAAGAGGCACCCGGAGCGAAGTGAGCTCCTGTCTCATCTGCAACAT
GCCACAACCCAGCCAGTCTCACAGGCTGGCCAGAAGCGTCCCTTCTCCTGCTCCTTTGGAGACC
ATGACTACTGCCAGGTGATCAGGCCAGAGGCTGCCCTGCAGAGGAAGGTGCTGCGGTCCTGGGA
GCCAATCAAGGTCCACCTTGAAGACTTGGCCCACCAGGGTGCAACCCTGCCAGTGGAAACAAAG
ACCCCTAGGAGGGAGGCAGACCAGAACTGTGACCCCACCCCCAAGGACAGCATGCAGCTAAGAG
ACCATGAGATCCGTGCCAGCCTCACAAAGCACTTTGGGCTGCTGGAAACCGCTCTGGAGGAGGA
AGACTTGGCTTCATGTAAAAGCCCGGAGTATGACACCGTATTTGAGGACAGCAGCAGCAGCAGT
GGCGAGAGCAGCTTCCTGCTAGAGGAGGAGGAAGAGGAGGGAGGGGAAGAGGACGATGAAGGAG
AGGACTCAGGGGTCAGCCCTCCCTGCTCCGACCACTGCCCCTACCAGAGCCCACCCAGTAAGGC
CAGTCGGCAGCTCTGTTCCCGAAGCCGCTCCAGTTCTGGCTCCTCATCCTGTAGCTCCTGGTCA
CCAGCTACCCGGAAGAACTTCAGACTTGAGAGCAGAGGGCCCTGTTCAGATGGAACCCCAAGCG
CCCGGCATGCCAAGAAGCGGCGGGAAAAGGCCATCGGTGAAGGTCGTGTGGTATACATCCGAAA
TCTCTCCGGTGACATGAGCTCTCGAGAACTAAAGAAGCGCTTCGAGGTGTTTGGTGAGATAGTC
GAGTGCCAGGTGCTGAGGAGAAGTAAGAGAGGCCAGAAGCACGGTTTTATTACCTTCCGGTGTT
CGGAGCATGCCGCCCTGTCCGTGAGGAACGGCGCTACCCTGAGAAAACGCAATGAGCCCTCCTT
CCACCTGAGCTATGGAGGGCTCCGGCACTTCCGCTGGCCCAGATACACCGACTATGATCCCACG
TCTGAAGAGTCCCTTCCCTCGTCTGGGAAAAGCAAGTACGAAGCCATGGATTTTGACAGCTTAC
TGAAAGAGGCCCAGCAGAGCCTGCATTAATATCAGCCTTAACCTTCGAGGAATACCTCAATACC
TCAGACAAGGCCCTTCCAATATGTTTACGTTTTCAAAGAAATGAGTATATGAGGAGGAGAGCAA
GCCAATGAGCGAGCGAGCGAGCGAGCGTGAGAGAACACACAGGAGAGAGAGACTTGAATCTGCT
GTCGTTTCCTTTAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_788264	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAO40026	(Get FASTA)	NCBI Sequence Viewer
	EDM14598	(Get FASTA)	NCBI Sequence Viewer
	EDM14599	(Get FASTA)	NCBI Sequence Viewer
	Q811R2	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_788264 ⟸ NM_176075

- Sequence:

show sequence

MQGEGKGGESGEEQLCADLPELDLSQLDASDFDSATCFGELQWCPETSETEPSQYSPDDSEFFQ
IDSENEALLAALTKTLDDIPEDDVGLAAFPGLDEGDTPSCTPASPAPLSVPPSPALERLLSPVS
EVDELSLLQKLLLATSSPTASSDALKDGATWSQTSLSSRSQRPCVKVDGTQDKKTPMLRSQSRP
CTELHKHLTSVLPCPRGKACSPPPHPSPQLLSKEDEEVGEDCPSPWPAPASPQDSLGQDTANPN
SAQVPKDDVRAMVQLIRYMHTYCLPQRKLPQRASEPIPQSCSSPLRKVPPRSRQTPKAFWTEFS
ILRELLAQDILCDVSKPYRLATPVYASLTPQSRTRPPKDSQASPAHSAMAEEVRITASPKSTGP
RPSLRPLRLEVKRDVNKPARQKREEDEEEEEEEEEEEEKEDEEEEWGRKRPGRGLPWTKLGRKM
DSSVCPVRRSRRLNPELGPWLTFTDEPLGALPSMCLATETHDLEEELGGLTDSSQGQQLPLGSQ
IPTLESPCESGCGDTDEDPSCPRPPSRDSPRCLMLALSQSDPLGKKSFEESLTVELCGTAGLTP
PTTPPYKPMEEDPFKQDTKHSPGQDTAPSLPSPETLQLTATPGASHKLPKRHPERSELLSHLQH
ATTQPVSQAGQKRPFSCSFGDHDYCQVIRPEAALQRKVLRSWEPIKVHLEDLAHQGATLPVETK
TPRREADQNCDPTPKDSMQLRDHEIRASLTKHFGLLETALEEEDLASCKSPEYDTVFEDSSSSS
GESSFLLEEEEEEGGEEDDEGEDSGVSPPCSDHCPYQSPPSKASRQLCSRSRSSSGSSSCSSWS
PATRKNFRLESRGPCSDGTPSARHAKKRREKAIGEGRVVYIRNLSGDMSSRELKKRFEVFGEIV
ECQVLRRSKRGQKHGFITFRCSEHAALSVRNGATLRKRNEPSFHLSYGGLRHFRWPRYTDYDPT
SEESLPSSGKSKYEAMDFDSLLKEAQQSLH

hide sequence

RefSeq Acc Id:

ENSRNOP00000023661 ⟸ ENSRNOT00000023661

RefSeq Acc Id:

ENSRNOP00000058932 ⟸ ENSRNOT00000066048

Protein Domains

RRM

Transcriptome

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

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (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

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/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

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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CSV

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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

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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CSV

TAB

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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

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (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

LE/Stm (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

LEW/Crl (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

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (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

LL/MavRrrc (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

LN/MavRrrc (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

M520/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

MHS/Gib (RGD)

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CSV

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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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

MR/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

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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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

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (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

SHR/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

SHRSP/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

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (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

SS/Jr (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

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (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

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

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:727948	AgrOrtholog
Ensembl Genes	ENSRNOG00000017503	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000023661	UniProtKB/Swiss-Prot
	ENSRNOP00000058932	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000023661	UniProtKB/Swiss-Prot
	ENSRNOT00000066048	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-1beta	UniProtKB/Swiss-Prot
	PPARGC1B_RRM	UniProtKB/Swiss-Prot
	RBD_domain_sf	UniProtKB/Swiss-Prot
	RRM_dom	UniProtKB/Swiss-Prot
KEGG Report	rno:291567	UniProtKB/Swiss-Prot
NCBI Gene	291567	ENTREZGENE
PANTHER	PTHR15528	UniProtKB/Swiss-Prot
	PTHR15528:SF12	UniProtKB/Swiss-Prot
Pfam	RRM_1	UniProtKB/Swiss-Prot
PhenoGen	Ppargc1b	PhenoGen
PROSITE	RRM	UniProtKB/Swiss-Prot
SMART	RRM	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF54928	UniProtKB/Swiss-Prot
UniProt	PRGC2_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-03	Ppargc1b	PPARG coactivator 1 beta	Ppargc1b	peroxisome proliferator-activated receptor gamma, coactivator 1 beta	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-09-24	Ppargc1b	peroxisome proliferator-activated receptor gamma, coactivator 1 beta	Ppargc1b	peroxisome proliferative activated receptor, gamma, coactivator 1 beta	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-11-17	Ppargc1b	peroxisome proliferative activated receptor, gamma, coactivator 1 beta			Symbol and Name updated	1299863	APPROVED
2004-02-11	Il1rapl1	peroxisome proliferator-activated receptor gamma coactivator 1 beta	Perc	peroxisome proliferator-activated receptor gamma coactivator 1beta-2a	Name updated to reflect Human and Mouse nomenclature	625702	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD