Ogdh (oxoglutarate dehydrogenase)

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Gene: Ogdh (oxoglutarate dehydrogenase) Rattus norvegicus

Analyze

Symbol:

Ogdh

Name:

oxoglutarate dehydrogenase

RGD ID:

1561359

Description:

Enables chaperone binding activity; heat shock protein binding activity; and oxoglutarate dehydrogenase (succinyl-transferring) activity. Involved in several processes, including 2-oxoglutarate metabolic process; succinyl-CoA metabolic process; and tricarboxylic acid cycle. Located in mitochondrion. Part of oxoglutarate dehydrogenase complex. Orthologous to human OGDH (oxoglutarate dehydrogenase); PARTICIPATES IN citric acid cycle pathway; fumaric aciduria pathway; mitochondrial complex II deficiency pathway; INTERACTS WITH (R,R,R)-alpha-tocopherol; (S)-nicotine; 1,1'-azobis(N,N-dimethylformamide).

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

2-oxoglutarate dehydrogenase complex component E1; 2-oxoglutarate dehydrogenase E1 component, mitochondrial; 2-oxoglutarate dehydrogenase, mitochondrial; 2-oxoglutarate dehydrogenase, mitochondrial-like; alpha-ketoglutarate dehydrogenase; LOC103693780; LOC360975; OGDC-E1; oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide); oxoglutarate dehydrogenase (lipoamide); similar to oxoglutarate dehydrogenase (lipoamide)

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

Allele / Splice:

Ogdh^em1Yuyi

Genetic Models:

SD-Ogdh^em1Yuyi

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	14	81,150,021 - 81,217,479 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	14	81,150,091 - 81,217,479 (+)	Ensembl
Rnor_6.0	14	86,414,924 - 86,481,903 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	86,414,949 - 86,613,327 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	14	87,376,110 - 87,442,862 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	87,022,994 - 87,090,768 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	14	80,033,036 - 80,099,636 (+)	NCBI		Celera
Cytogenetic Map	14	q21	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Alpha-Ketoglutarate Dehydrogenase Deficiency (ISO)

Chemical and Drug Induced Liver Injury (ISO)

pleomorphic xanthoastrocytoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-dexrazoxane (ISO)

(-)-epigallocatechin 3-gallate (ISO)

(R,R,R)-alpha-tocopherol (EXP)

(S)-nicotine (EXP)

1,1'-azobis(N,N-dimethylformamide) (EXP)

1,2-dimethylhydrazine (ISO)

1,4-dithiothreitol (EXP)

17beta-hydroxy-17-methylestra-4,9,11-trien-3-one (ISO)

2,2,2-tetramine (EXP)

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

2-hydroxypropanoic acid (ISO)

3,4-methylenedioxymethamphetamine (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole (EXP)

5-methyl-4-oxido-2-pyrazin-4-iumcarboxylic acid (ISO)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

acrolein (EXP)

acrylamide (EXP,ISO)

all-trans-retinoic acid (ISO)

aluminium atom (EXP,ISO)

aluminium(0) (EXP,ISO)

amiodarone (EXP)

aristolochic acid (ISO)

arsane (EXP)

arsenic atom (EXP)

benzbromarone (EXP)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bisphenol A (EXP,ISO)

bortezomib (ISO)

cadmium dichloride (EXP)

capsaicin (ISO)

carbon nanotube (ISO)

choline (ISO)

clofibrate (EXP)

cobalt dichloride (EXP,ISO)

copper atom (EXP)

copper(0) (EXP)

dexamethasone (ISO)

diallyl trisulfide (EXP)

dibutyl phthalate (EXP)

dicrotophos (ISO)

diuron (EXP)

doxorubicin (ISO)

ethanol (EXP,ISO)

fipronil (EXP)

flutamide (EXP)

folic acid (EXP,ISO)

gentamycin (EXP)

glutathione (EXP)

gold atom (ISO)

gold(0) (ISO)

hydrogen peroxide (EXP,ISO)

iodide salt (EXP)

isoniazide (ISO)

isoprenaline (EXP)

ivermectin (ISO)

kahweol (ISO)

L-1,4-dithiothreitol (EXP)

L-ascorbic acid (EXP)

L-ethionine (EXP)

L-methionine (ISO)

methotrexate (ISO)

methyl methanesulfonate (ISO)

myrtenal (EXP)

N-methyl-4-phenylpyridinium (ISO)

N-nitrosodiethylamine (EXP)

naringin (EXP)

nickel atom (ISO)

nickel dichloride (EXP)

nickel sulfate (ISO)

nicotinamide (ISO)

nicotine (EXP)

Nonylphenol (EXP)

ochratoxin A (EXP,ISO)

omeprazole (EXP)

oxybenzone (EXP)

paracetamol (ISO)

perfluorooctanoic acid (ISO)

phenobarbital (EXP)

phlorizin (ISO)

pirinixic acid (EXP,ISO)

potassium chromate (ISO)

rac-lactic acid (ISO)

resveratrol (ISO)

S-allylcysteine (EXP)

silicon dioxide (ISO)

sinapic acid (EXP)

sodium arsenite (EXP,ISO)

Soman (EXP)

streptozocin (EXP)

sunitinib (ISO)

tert-butyl hydroperoxide (EXP)

testosterone enanthate (ISO)

thioacetamide (EXP)

thymol (EXP)

thymol sulfate(1-) (EXP)

tributylstannane (ISO)

triptonide (ISO)

troglitazone (ISO)

tunicamycin (ISO)

valproic acid (ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

2-oxoglutarate metabolic process (IDA,ISO)

cerebellar cortex development (ISO)

generation of precursor metabolites and energy (ISS)

glycolytic process (IEA)

hippocampus development (ISO)

histone succinylation (ISO,ISS)

NADH metabolic process (IDA)

olfactory bulb mitral cell layer development (ISO)

pyramidal neuron development (ISO)

striatum development (ISO)

succinyl-CoA metabolic process (IDA,ISO)

tangential migration from the subventricular zone to the olfactory bulb (ISO)

thalamus development (ISO)

tricarboxylic acid cycle (IBA,IDA)

Cellular Component

mitochondrial matrix (IEA)

mitochondrial membrane (ISS)

mitochondrion (IBA,IDA,ISO)

nucleus (ISO,ISS)

oxoglutarate dehydrogenase complex (IBA,IDA,ISO)

Molecular Function

chaperone binding (IPI)

heat shock protein binding (IPI)

metal ion binding (IEA)

oxoglutarate dehydrogenase (NAD+) activity (ISO)

oxoglutarate dehydrogenase (succinyl-transferring) activity (IBA,IDA,ISO,ISS)

protein binding (ISO)

thiamine pyrophosphate binding (ISO,ISS)

Molecular Pathway Annotations Click to see Annotation Detail View

citric acid cycle pathway (IDA,IEA,ISO)

fumaric aciduria pathway (ISO)

lysine degradation pathway (IEA)

mitochondrial complex II deficiency pathway (ISO)

pyruvate dehydrogenase E2 deficiency pathway (ISO)

pyruvate dehydrogenase E3 deficiency pathway (ISO)

tryptophan metabolic pathway (IEA)

References

References - curated


1.	Andersson U, etal., Biochem Biophys Res Commun. 1998 Aug 19;249(2):512-6.
2.	Bruschi SA, etal., Proc Natl Acad Sci U S A. 1998 Nov 10;95(23):13413-8.
3.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4.	OMIM Disease Annotation Pipeline
5.	Ono K, etal., J Biochem. 1987 Jan;101(1):19-27.
6.	Pipeline to import KEGG annotations from KEGG into RGD
7.	Pipeline to import SMPDB annotations from SMPDB into RGD
8.	RGD automated data pipeline
9.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10.	RGD automated import pipeline for gene-chemical interactions
11.	Sheu KF and Blass JP, Ann N Y Acad Sci. 1999;893:61-78.
12.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:14651853	PMID:15356189	PMID:15489334	PMID:16025302	PMID:16901643	PMID:17322295	PMID:18614015	PMID:18783430	PMID:19723099	PMID:24495017	PMID:24515115	PMID:26316108
PMID:26936970	PMID:28601082	PMID:29211711	PMID:32024885

Genomics

Comparative Map Data

Ogdh
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	14	81,150,021 - 81,217,479 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	14	81,150,091 - 81,217,479 (+)	Ensembl
Rnor_6.0	14	86,414,924 - 86,481,903 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	86,414,949 - 86,613,327 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	14	87,376,110 - 87,442,862 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	87,022,994 - 87,090,768 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	14	80,033,036 - 80,099,636 (+)	NCBI		Celera
Cytogenetic Map	14	q21	NCBI

OGDH
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	7	44,606,572 - 44,709,066 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	7	44,606,572 - 44,709,066 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	7	44,646,226 - 44,748,665 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	44,612,696 - 44,715,194 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	7	44,419,410 - 44,521,908	NCBI
Celera	7	44,744,966 - 44,847,513 (+)	NCBI
Cytogenetic Map	7	p13	NCBI
HuRef	7	44,530,268 - 44,633,659 (+)	NCBI		HuRef
CHM1_1	7	44,650,491 - 44,752,987 (+)	NCBI		CHM1_1
CRA_TCAGchr7v2	7	44,685,639 - 44,788,190 (+)	NCBI

Ogdh
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	6,241,597 - 6,309,094 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	11	6,241,633 - 6,306,642 (+)	Ensembl
GRCm38	11	6,291,597 - 6,359,094 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	6,291,633 - 6,356,642 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	6,191,600 - 6,259,096 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	6,191,600 - 6,268,605 (+)	NCBI			mm8
Celera	11	6,773,507 - 6,842,010 (+)	NCBI		Celera
Cytogenetic Map	11	A1	NCBI

Ogdh
(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_004955456	7,415,589 - 7,485,515 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955456	7,416,343 - 7,484,889 (-)	NCBI	ChiLan1.0	ChiLan1.0

OGDH
(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	7	45,390,679 - 45,492,000 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	45,409,148 - 45,491,636 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	7	45,321,559 - 45,422,515 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

OGDH
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Dog10K_Boxer_Tasha	16	2,363,764 - 2,432,958 (+)	NCBI
ROS_Cfam_1.0	16	14,428,589 - 14,497,803 (-)	NCBI
UNSW_CanFamBas_1.0	16	14,059,830 - 14,129,291 (-)	NCBI
UU_Cfam_GSD_1.0	16	14,040,718 - 14,109,906 (-)	NCBI

Ogdh
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405118	100,295,062 - 100,372,678 (+)	NCBI
SpeTri2.0	NW_004936478	19,506,845 - 19,584,411 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

OGDH
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	18	50,609,418 - 50,684,964 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	18	50,609,415 - 50,684,990 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	18	55,497,953 - 55,588,004 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

OGDH
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	21	13,975,825 - 14,070,216 (-)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	21	13,973,845 - 14,070,731 (-)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666062	8,465,981 - 8,560,428 (+)	NCBI	Vero_WHO_p1.0

Ogdh
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624740	7,481,719 - 7,549,809 (-)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

D14Rat20

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	14	81,204,751 - 81,204,906 (+)	MAPPER	mRatBN7.2
Rnor_6.0	14	86,468,309 - 86,468,463	NCBI	Rnor6.0
Rnor_6.0	14	86,601,370 - 86,601,524	NCBI	Rnor6.0
Rnor_5.0	14	87,430,137 - 87,430,291	UniSTS	Rnor5.0
RGSC_v3.4	14	87,078,650 - 87,079,096	RGD	RGSC3.4
RGSC_v3.4	14	87,078,921 - 87,079,075	UniSTS	RGSC3.4
RGSC_v3.1	14	87,098,066 - 87,098,220	RGD
Celera	14	80,087,790 - 80,087,944	UniSTS
RH 3.4 Map	14	584.8	RGD
RH 3.4 Map	14	584.8	UniSTS
RH 2.0 Map	14	716.2	RGD
SHRSP x BN Map	14	44.91	RGD
Cytogenetic Map	14	q21	UniSTS

RH133330

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	14	81,217,185 - 81,217,370 (+)	MAPPER	mRatBN7.2
Rnor_6.0	14	86,613,801 - 86,613,985	NCBI	Rnor6.0
Rnor_6.0	14	86,480,741 - 86,480,925	NCBI	Rnor6.0
Rnor_5.0	14	87,442,569 - 87,442,753	UniSTS	Rnor5.0
RGSC_v3.4	14	87,091,353 - 87,091,537	UniSTS	RGSC3.4
Celera	14	80,100,221 - 80,100,405	UniSTS
RH 3.4 Map	14	582.5	UniSTS
Cytogenetic Map	14	q21	UniSTS

BF387217

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	14	81,170,945 - 81,171,116 (+)	MAPPER	mRatBN7.2
Rnor_6.0	14	86,435,231 - 86,435,401	NCBI	Rnor6.0
Rnor_5.0	14	87,397,059 - 87,397,229	UniSTS	Rnor5.0
RGSC_v3.4	14	87,043,964 - 87,044,134	UniSTS	RGSC3.4
Celera	14	80,053,820 - 80,053,990	UniSTS
RH 3.4 Map	14	578.0	UniSTS
Cytogenetic Map	14	q21	UniSTS

RH135290

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	14	81,157,499 - 81,157,705 (+)	MAPPER	mRatBN7.2
Rnor_6.0	14	86,421,714 - 86,421,919	NCBI	Rnor6.0
Rnor_5.0	14	87,383,542 - 87,383,747	UniSTS	Rnor5.0
RGSC_v3.4	14	87,030,611 - 87,030,816	UniSTS	RGSC3.4
Celera	14	80,040,436 - 80,040,641	UniSTS
RH 3.4 Map	14	576.1	UniSTS
Cytogenetic Map	14	q21	UniSTS

MARC_4335-4336:996679558:1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	14	81,215,864 - 81,216,450 (+)	MAPPER	mRatBN7.2
Rnor_6.0	14	86,612,480 - 86,613,065	NCBI	Rnor6.0
Rnor_6.0	14	86,479,420 - 86,480,005	NCBI	Rnor6.0
Rnor_5.0	14	87,441,248 - 87,441,833	UniSTS	Rnor5.0
RGSC_v3.4	14	87,090,032 - 87,090,617	UniSTS	RGSC3.4
Celera	14	80,098,900 - 80,099,485	UniSTS
Cytogenetic Map	14	q21	UniSTS

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631839	Niddm37	Non-insulin dependent diabetes mellitus QTL 37	3.37		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	11030622	95876975	Rat
2313048	Bss84	Bone structure and strength QTL 84	3.1	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	14	37669719	82669719	Rat
2313084	Bss83	Bone structure and strength QTL 83	2.9	0.0001	tibia size trait (VT:0100001)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	14	37669719	82669719	Rat
2313089	Bss81	Bone structure and strength QTL 81	3.4	0.0001	body length (VT:0001256)	body length, nose to rump (CMO:0000079)	14	37669719	82669719	Rat
2313100	Bss82	Bone structure and strength QTL 82	3	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	14	37669719	82669719	Rat
738037	Hcas6	Hepatocarcinoma susceptibility QTL 6	2.93		liver integrity trait (VT:0010547)	liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)	14	39057237	83368335	Rat
631523	Pia13	Pristane induced arthritis QTL 13	3.3		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	14	40793460	98037301	Rat
1300136	Rf22	Renal function QTL 22	3.9		renal blood flow trait (VT:2000006)	absolute change in renal vascular resistance (CMO:0001900)	14	42262529	95023211	Rat
1549834	Scl45	Serum cholesterol level QTL 45	5.8		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	14	50023211	95023211	Rat
2300197	Scl59	Serum cholesterol level QTL 59			blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	14	55147478	100147478	Rat
9590294	Uminl4	Urine mineral level QTL 4	5.66	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	14	55624247	100624247	Rat
9589034	Epfw11	Epididymal fat weight QTL 11	6	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	14	55624247	100624247	Rat
2317879	Alcrsp27	Alcohol response QTL 27	3.3	0.63	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	14	56631369	101631369	Rat
634328	Hc5	Hypercalciuria QTL 5	2.3		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	14	58184885	103184885	Rat
70153	Bp59	Blood pressure QTL 59	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	14	68757796	83368335	Rat
1582259	Gluco23	Glucose level QTL 23	3.1	0.0008	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	70053989	104886043	Rat
1641900	Alcrsp11	Alcohol response QTL 11			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	14	70053989	104886043	Rat
1582197	Gluco27	Glucose level QTL 27	3.4	0.0006	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	73415323	92554092	Rat
1582209	Gluco20	Glucose level QTL 20	3.8	0.0005	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	73415323	92554092	Rat
1582236	Gluco22	Glucose level QTL 22	3.3	0.0164	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	73415323	92554092	Rat
1582255	Gluco29	Glucose level QTL 29	3.1	0.0025	blood glucose amount (VT:0000188)	absolute change in blood glucose level area under curve (CMO:0002034)	14	73415323	92554092	Rat
1582250	Gluco26	Glucose level QTL 26	3.3	0.0009	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	73415323	95876975	Rat
631213	Bw60	Body weight QTL60	4.51		retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	14	79950921	95876975	Rat

Genetic Models

This gene Ogdh is modified in the following models/strains

SD-Ogdh^em1Yuyi

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	119
Count of miRNA genes:	91
Interacting mature miRNAs:	109
Transcripts:	ENSRNOT00000057199
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

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001017461	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006251446	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006251447	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006251448	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039092218	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039092219	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039092220	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039092222	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC083811	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473963	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ222842	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000254	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000057199 ⟹ ENSRNOP00000054026

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	14	81,150,091 - 81,217,479 (+)	Ensembl
Rnor_6.0 Ensembl	14	86,414,976 - 86,480,156 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000083394 ⟹ ENSRNOP00000068674

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	14	81,150,091 - 81,217,479 (+)	Ensembl
Rnor_6.0 Ensembl	14	86,414,949 - 86,613,327 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000095078 ⟹ ENSRNOP00000086308

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	14	81,150,091 - 81,217,479 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000101150 ⟹ ENSRNOP00000091120

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	14	81,150,091 - 81,217,479 (+)	Ensembl

RefSeq Acc Id:

NM_001017461 ⟹ NP_001017461

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	14	81,150,101 - 81,216,601 (+)	NCBI
Rnor_6.0	14	86,414,976 - 86,480,156 (+)	NCBI
Rnor_5.0	14	87,376,110 - 87,442,862 (+)	NCBI
RGSC_v3.4	14	87,022,994 - 87,090,768 (+)	RGD
Celera	14	80,033,036 - 80,099,636 (+)	RGD

Sequence:

show sequence

GCCCGGAGTGGGGTGTCGGCGCCTCACTCGGGTGGAGCTGAACAGGAGACAGGTATTTGTGGAA
GGCTTCAGGACAAAATGTTTCATTTAAGGACTTGTGCTGCTAAGTTAAGGCCATTGACAGCCTC
CCAGACTGTTAAGACATTTTCACAAAACAAACCAGCAGCAATTAGGACGTTTCAACAGATTCGG
TGCTATTCTGCACCTGTAGCTGCTGAACCATTTCTTAGTGGGACTAGTTCGAACTATGTGGAGG
AAATGTACTGTGCCTGGTTGGAGAATCCCAAAAGTGTACATAAGTCATGGGACATTTTTTTCCG
AAACACCAATGCTGGAGCCCCACCGGGCACTGCCTACCAGAGCCCCCTTTCCCTGAGTCGAAGC
TCCCTGGCTACCATGGCTCATGCACAGTCCCTGGTGGAAGCACAGCCTAACGTCGACAAGCTCG
TGGAGGACCACTTGGCGGTGCAGTCTCTCATCAGGGCGTATCAGATACGAGGGCACCATGTAGC
ACAGCTGGACCCCCTGGGGATTTTGGATGCTGATCTGGACTCCTCCGTGCCCGCTGACATTATC
TCATCCACAGACAAACTTGGGTTCTATGGCCTACACGAGTCTGACCTTGACAAGGTCTTCCACT
TACCCACCACCACTTTCATCGGGGGACAGGAGCCAGCACTTCCTCTTCGGGAGATCATCCGTCG
GCTGGAGATGGCCTACTGCCAGCACATTGGTGTGGAGTTCATGTTCATTAACGATTTGGAGCAA
TGCCAGTGGATCCGGCAGAAGTTTGAGACCCCTGGGATCATGCAGTTCACCAATGAGGAGAAGC
GGACCCTGCTGGCCAGGCTTGTACGGTCCACCAGGTTTGAGGAGTTCCTGCAGCGAAAGTGGTC
CTCTGAGAAGCGTTTTGGTCTGGAAGGCTGTGAGGTGCTGATCCCTGCCCTCAAGACAATCATT
GACATGTCAAGTGCAAATGGAGTGGACTATGTGATCATGGGGATGCCACACAGAGGACGACTGA
ACGTGCTAGCCAATGTCATCAGGAAGGAGCTGGAGCAGATATTCTGTCAGTTTGACTCGAAGCT
GGAGGCAGCTGATGAGGGTTCCGGGGACATGAAGTACCACCTGGGCATGTATCACCGAAGGATC
AACCGTGTGACCGACAGAAACATCACTCTGTCCTTGGTGGCTAACCCTTCCCACTTAGAGGCTG
CTGACCCTGTAGTGATGGGAAAGACCAAAGCTGAACAGTTCTACTGTGGAGACACTGAAGGGAA
AAAGGTGATGTCTATCCTGCTGCATGGGGATGCTGCCTTTGCTGGCCAGGGTATCGTGTATGAG
ACCTTCCATCTCAGCGACCTGCCATCCTATACAACCCACGGCACCGTTCACGTGGTTGTCAACA
ACCAGATTGGCTTCACCACAGACCCTCGGATGGCCCGCTCTTCTCCCTACCCCACTGATGTGGC
CCGAGTGGTGAACGCCCCCATTTTCCATGTCAACTCAGATGACCCTGAAGCTGTCATGTATGTA
TGCAAGGTGGCAGCTGAGTGGAGAAACACCTTCCACAAGGATGTTGTTGTTGATCTGGTGTGTT
ATCGACGAAATGGCCACAACGAGATGGATGAACCTATGTTCACACAGCCACTCATGTACAAGCA
GATCCGTAAGCAGAAGCCGGTACTGCAGAAGTATGCAGAATTGCTGGTATCCCAGGGGGTCGTC
AACCAGCCCGAATATGAGGAGGAAATCTCCAAGTACGATAAGATCTGTGAGGAAGCATTTACCA
GATCCAAAGATGAGAAGATCTTGCACATCAAGCACTGGCTGGATTCCCCCTGGCCTGGCTTTTT
CACCCTGGATGGACAGCCCAGGAGCATGACCTGCCCCTCCACTGGCCTGGAGGAGGACATCTTG
ACCCACATTGGGAATGTGGCCAGTTCTGTACCTGTGGAGAACTTTACCATCCATGGAGGGCTGA
GCCGGATCTTGAAGACTCGCAGAGAGCTTGTGACAAACCGGACTGTGGACTGGGCCCTGGCAGA
GTACATGGCGTTCGGATCACTCCTGAAGGAAGGCATCCATGTCCGGCTGAGTGGCCAGGACGTG
GAGCGGGGTACCTTCAGCCATCGCCACCATGTGCTCCATGACCAGAATGTGGACAAAAGAACCT
GCATCCCCATGAACCACCTTTGGCCTAACCAGGCCCCTTACACCGTGTGCAACAGCTCGTTGTC
TGAGTATGGTGTCCTGGGCTTTGAACTGGGCTTTGCCATGGCTAGCCCTAATGCTCTGGTTCTC
TGGGAGGCCCAGTTTGGTGATTTCAACAACATGGCACAGTGCATCATTGACCAGTTCATCTGCC
CAGGACAGGCAAAGTGGGTGCGGCAGAATGGCATCGTGCTCCTGCTACCTCACGGCATGGAAGG
CATGGGTCCCGAGCATTCCTCTGCCCGTCCAGAGAGGTTTCTGCAGATGTGCAATGATGACCCA
GATGTCCTGCCTAACCTGCAGGAGGAAAACTTTGACATCAGTCAGCTCTACGACTGCAACTGGA
TTGTCGTCAACTGCTCCACCCCTGGCAACTTCTTCCACGTGCTGCGACGACAGATCTTGCTGCC
CTTCCGGAAGCCGTTAATCGTCTTCACTCCCAAATCCCTCCTGCGCCACCCTGAGGCAAGAACT
AGCTTTGATGAGATGCTGCCAGGAACCCACTTCCAGCGTGTGATCCCAGAAGATGGACCTGCAG
CTCAGAACCCAGACAAAGTCAAGAGGCTTCTCTTCTGCACTGGCAAGGTGTACTATGACCTCAC
CCGAGAGCGCAAAGCCAGGGACATGGCAGAGGAGGTGGCTATTACAAGGATTGAGCAGCTGTCA
CCATTCCCCTTCGACCTCCTGCTGAAAGAGGCACAGAAGTATCCCAATGCTGAGCTGGCCTGGT
GCCAGGAAGAGCACAAGAATCAAGGCTACTATGACTATGTCAAGCCAAGACTTCGGACCACCAT
TGACCGTGCTAAGCCTGTCTGGTATGCTGGCCGAGACCCAGCAGCCGCTCCAGCCACTGGCAAC
AAGAAGACCCACCTGACAGAGCTGCAGCGCTTTCTGGACACAGCCTTTGACCTGGACGCCTTCA
AGAAATTCTCTTAGATGCTCCTGGAGTTGATCCGGCCATGGCCCCCCTGTGTCCATGACGCTCT
TTGCTTCTCAACTAAAGAATAGTGCCTCTGCACTGTCAAAAAAAAAAAAAAAAAAAAAAAAAAA
AA

hide sequence

RefSeq Acc Id:

XM_006251446 ⟹ XP_006251508

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	14	81,150,116 - 81,217,479 (+)	NCBI
Rnor_6.0	14	86,414,937 - 86,481,903 (+)	NCBI
Rnor_5.0	14	87,376,110 - 87,442,862 (+)	NCBI

Sequence:

show sequence

CGTTGACGCCACACGCCGGGGCGGGGCCGAGAGTTTGGAGCCCGGAGTGGGGTGTCGGCGCCTC
ACTCGGGTGGAGCTGAACAGGAGACAGGTAACCTTGTGCGGCAGACGGGCTCCGTCCAGTGCTG
GGAGGCTCGGCGCTTGACACCCGGAGCTCGCGGCCGAGGGTATTTGTGGAAGGCTTCAGGACAA
AATGTTTCATTTAAGGACTTGTGCTGCTAAGTTAAGGCCATTGACAGCCTCCCAGACTGTTAAG
ACATTTTCACAAAACAAACCAGCAGCAATTAGGACGTTTCAACAGATTCGGTGCTATTCTGCAC
CTGTAGCTGCTGAACCATTTCTTAGTGGGACTAGTTCGAACTATGTGGAGGAAATGTACTGTGC
CTGGTTGGAGAATCCCAAAAGTGTACATAAGTCATGGGACATTTTTTTCCGAAACACCAATGCT
GGAGCCCCACCGGGCACTGCCTACCAGAGCCCCCTTTCCCTGAGTCGAAGCTCCCTGGCTACCA
TGGCTCATGCACAGTCCCTGGTGGAAGCACAGCCTAACGTCGACAAGCTCGTGGAGGACCACTT
GGCGGTGCAGTCTCTCATCAGGGCGTATCAGATACGAGGGCACCATGTAGCACAGCTGGACCCC
CTGGGGATTTTGGATGCTGATCTGGACTCCTCCGTGCCCGCTGACATTATCTCATCCACAGACA
AACTTGGGTTCTATGGCCTACACGAGTCTGACCTTGACAAGGTCTTCCACTTACCCACCACCAC
TTTCATCGGGGGACAGGAGCCAGCACTTCCTCTTCGGGAGATCATCCGTCGGCTGGAGATGGCC
TACTGCCAGCACATTGGTGTGGAGTTCATGTTCATTAACGATTTGGAGCAATGCCAGTGGATCC
GGCAGAAGTTTGAGACCCCTGGGATCATGCAGTTCACCAATGAGGAGAAGCGGACCCTGCTGGC
CAGGCTTGTACGGTCCACCAGGTTTGAGGAGTTCCTGCAGCGAAAGTGGTCCTCTGAGAAGCGT
TTTGGTCTGGAAGGCTGTGAGGTGCTGATCCCTGCCCTCAAGACAATCATTGACATGTCAAGTG
CAAATGGAGTGGACTATGTGATCATGGGGATGCCACACAGAGGACGACTGAACGTGCTAGCCAA
TGTCATCAGGAAGGAGCTGGAGCAGATATTCTGTCAGTTTGACTCGAAGCTGGAGGCAGCTGAT
GAGGGTTCCGGGGACATGAAGTACCACCTGGGCATGTATCACCGAAGGATCAACCGTGTGACCG
ACAGAAACATCACTCTGTCCTTGGTGGCTAACCCTTCCCACTTAGAGGCTGCTGACCCTGTAGT
GATGGGAAAGACCAAAGCTGAACAGTTCTACTGTGGAGACACTGAAGGGAAAAAGGTGATGTCT
ATCCTGCTGCATGGGGATGCTGCCTTTGCTGGCCAGGGTATCGTGTATGAGACCTTCCATCTCA
GCGACCTGCCATCCTATACAACCCACGGCACCGTTCACGTGGTTGTCAACAACCAGATTGGCTT
CACCACAGACCCTCGGATGGCCCGCTCTTCTCCCTACCCCACTGATGTGGCCCGAGTGGTGAAC
GCCCCCATTTTCCATGTCAACTCAGATGACCCTGAAGCTGTCATGTATGTATGCAAGGTGGCAG
CTGAGTGGAGAAACACCTTCCACAAGGATGTTGTTGTTGATCTGGTGTGTTATCGACGAAATGG
CCACAACGAGATGGATGAACCTATGTTCACACAGCCACTCATGTACAAGCAGATCCGTAAGCAG
AAGCCGGTACTGCAGAAGTATGCAGAATTGCTGGTATCCCAGGGGGTCGTCAACCAGCCCGAAT
ATGAGGAGGAAATCTCCAAGTACGATAAGATCTGTGAGGAAGCATTTACCAGATCCAAAGATGA
GAAGATCTTGCACATCAAGCACTGGCTGGATTCCCCCTGGCCTGGCTTTTTCACCCTGGATGGA
CAGCCCAGGAGCATGACCTGCCCCTCCACTGGCCTGGAGGAGGACATCTTGACCCACATTGGGA
ATGTGGCCAGTTCTGTACCTGTGGAGAACTTTACCATCCATGGAGGGCTGAGCCGGATCTTGAA
GACTCGCAGAGAGCTTGTGACAAACCGGACTGTGGACTGGGCCCTGGCAGAGTACATGGCGTTC
GGATCACTCCTGAAGGAAGGCATCCATGTCCGGCTGAGTGGCCAGGACGTGGAGCGGGGTACCT
TCAGCCATCGCCACCATGTGCTCCATGACCAGAATGTGGACAAAAGAACCTGCATCCCCATGAA
CCACCTTTGGCCTAACCAGGCCCCTTACACCGTGTGCAACAGCTCGTTGTCTGAGTATGGTGTC
CTGGGCTTTGAACTGGGCTTTGCCATGGCTAGCCCTAATGCTCTGGTTCTCTGGGAGGCCCAGT
TTGGTGATTTCAACAACATGGCACAGTGCATCATTGACCAGTTCATCTGCCCAGGACAGGCAAA
GTGGGTGCGGCAGAATGGCATCGTGCTCCTGCTACCTCACGGCATGGAAGGCATGGGTCCCGAG
CATTCCTCTGCCCGTCCAGAGAGGTTTCTGCAGATGTGCAATGATGACCCAGATGTCCTGCCTA
ACCTGCAGGAGGAAAACTTTGACATCAGTCAGCTCTACGACTGCAACTGGATTGTCGTCAACTG
CTCCACCCCTGGCAACTTCTTCCACGTGCTGCGACGACAGATCTTGCTGCCCTTCCGGAAGCCG
TTAATCGTCTTCACTCCCAAATCCCTCCTGCGCCACCCTGAGGCAAGAACTAGCTTTGATGAGA
TGCTGCCAGGAACCCACTTCCAGCGTGTGATCCCAGAAGATGGACCTGCAGCTCAGAACCCAGA
CAAAGTCAAGAGGCTTCTCTTCTGCACTGGCAAGGTGTACTATGACCTCACCCGAGAGCGCAAA
GCCAGGGACATGGCAGAGGAGGTGGCTATTACAAGGATTGAGCAGCTGTCACCATTCCCCTTCG
ACCTCCTGCTGAAAGAGGCACAGAAGTATCCCAATGCTGAGCTGGCCTGGTGCCAGGAAGAGCA
CAAGAATCAAGGCTACTATGACTATGTCAAGCCAAGACTTCGGACCACCATTGACCGTGCTAAG
CCTGTCTGGTATGCTGGCCGAGACCCAGCAGCCGCTCCAGCCACTGGCAACAAGAAGACCCACC
TGACAGAGCTGCAGCGCTTTCTGGACACAGCCTTTGACCTGGACGCCTTCAAGAAATTCTCTTA
GATGCTCCTGGAGTTGATCCGGCCATGGCCCCCCTGTGTCCATGACGCTCTTTGCTTCTCAACT
AAAGAATAGTGCCTCTGCACTGTCCACACGTCTGCCCTTCGCTGTGCCACACACCGCCCCTGTT
CTCATAGGAATTAAGTTGTCCACTCCAGTGCCCAGCTGCTCCCCGGCCACAGCCCAGCCTGGCT
GACTTCTCTCAGGCTGCACACCTTTCACGAAGACCATAAGGAGCAGGATGAGGAAAGGGAGCCC
TCTCAGGACATCCTAGGGAAGGCAGACCTGGCCCCCCCATCCTCACTGTGTAATCCTCCAGGGT
AGGAACAGAAATCCTATGTGGCTTCCCACAGTACTAGCACTCAGTCCTTGTCACCCATCAAGTC
ACAGATTCAAGACTAGGAGTAGTTTTGTCTTGCTAGGGCCAAGCTGAGAGCTCCTGGAGGAGCT
GTAGCTGGCAGGGTTTGGGTGTCATCTAGACGTTAAGTGCGTGGAGAATGGCGTGGGGTTTTTG
GAGAGGCTTTAGCAGTGGTGTTAGGTCAGCTCTGCTACCCTTCTTGGATTTCGGGCTACATGTG
GGAAATTTGCCCTAACTACCGAGTCAGGAGTGATTGGCTCTGAGTAAGGCCCAGAAGCTCCCTT
GGGTCCCAAACCCCAGGCACTGGCTGCCTCTTGGTCCTGCTGACTCTTCTCTCCTAACCCCAGC
CACTTAATTTTCTCTGTTGTTCCCTCGAACACACGGAAGCTGTTGATGAATCCTTTTCTTTGCT
GTGCCAAGGCAGGTCAGAAGCAGATCAATGGATAAGGGCAAGGTGTCCCGAGGAGCCAGCTGTC
CTTCCTCCCTCTTTAGACCTCCACAGGGACAGACCTGATTTATTTATTTTGGTTTAAAAAAAAA
GGAAATGAAAAAAAGAACAACCAACTTTGCATTGCATCGGCTTGACCCATAAACTAAGTTATCA
TGGCCAGCCTGTCTGCTGTCATTCTGTGCTCCGCCTTCCCCCACCTGCCTGAGAACAGACTCCT
CATTGGGGTGGGGCTGCTAGCTGCGTTTGCCAACTGGATGTGTACCGCACAGTTTGCTGTACTC
CCTCACGGGCAGCAGCCATTGTAGGTAGGTACTGGATGAGACGCAGGTTAGCAACTCTGCCTGG
ACCGTACTCTGCACTCTGGCCTGTGCATTTGATAGTTGAGTCTGCATTCTACGTGGGCTTATCT
TAATGGCAGTCTTTTAGACTGCAAATCTGAGGCCTGGACACCCAGCCTGACTATGAGCCTTGAT
CAACACAGGTCCTCATTTTCTAGGCTGTACCAACCCAAGCCTGAGCCTTCAATGGCTCATTCCT
CCTGCTACCCTGTGTATCTTGATTTTAGGCAGGCCTAATAACTACAGTCAGCACCAGGAGAGAG
TGTGCTAGGATAGGAACAGTGCCCCTTACTCTCAGAGGTGGGAGGACAGGAGTAGTTGTTTCTG
CCTGTGGTCAGCGTATACTTGTTTGCCACCTGGTGTCCCCTTCTCCCTTGGAACAGCCAATGTT
TTGCACACAGAACTGGACTAGAGAGAGAGAAGCTTAGGCAGGTGTGGGTGAGTGCAGCACAGGC
TGTCCGTAAGCAGTAAGAGGGCTGGCAGTAAGTACACCTGGGAACAGCTGCAGGAGAACTAGTG
CATTTATTTGGGGGTGGGGGGTTGGGAGGAGCTATTTATGCCCCCTAGGGAGGTGGCCAAGATC
TCTGGGGCAAGGTTTATGTGGCCATAGACCCTTGAGAGTTTTGTTTTTCTAGAATCAAACTGGC
TTTTCTTATTCATATACTTAGTAATAAACAGGGTAGAACTGTA

hide sequence

RefSeq Acc Id:

XM_006251448 ⟹ XP_006251510

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	14	81,150,021 - 81,217,479 (+)	NCBI
Rnor_6.0	14	86,414,924 - 86,481,903 (+)	NCBI
Rnor_5.0	14	87,376,110 - 87,442,862 (+)	NCBI

Sequence:

show sequence

GGGCCGGGCTACGCGTTGACGCCACACGCCGGGGCGGGGCCGAGAGTTTGGAGCCCGGAGTGGG
GTGTCGGCGCCTCACTCGGGTGGAGCTGAACAGGAGACAGGTATTTGTGGAAGGCTTCAGGACA
AAATGTTTCATTTAAGGACTTGTGCTGCTAAGTTAAGGCCATTGACAGCCTCCCAGACTGTTAA
GACATTTTCACAAAACAAACCAGCAGCAATTAGGACGTTTCAACAGATTCGGTGCTATTCTGCA
CCTGTAGCTGCTGAACCATTTCTTAGTGGGACTAGTTCGAACTATGTGGAGGAAATGTACTGTG
CCTGGTTGGAGAATCCCAAAAGTGTACATAAGTCATGGGACATTTTTTTCCGAAACACCAATGC
TGGAGCCCCACCGGGCACTGCCTACCAGAGCCCCCTTTCCCTGAGTCGAAGCTCCCTGGCTACC
ATGGCTCATGCACAGTCCCTGGTGGAAGCACAGCCTAACGTCGACAAGCTCGTGGAGGACCACT
TGGCGGTGCAGTCTCTCATCAGGGCGTATCAGGTCAGGGGTCACCAAATTGCAAAACTTGATCC
TCTCGGAATTAGTTGTGTAAATTTTGATGATGCTCCGGTAACTGTTTCTTCAAACGTGGGGTTC
TATGGCCTACACGAGTCTGACCTTGACAAGGTCTTCCACTTACCCACCACCACTTTCATCGGGG
GACAGGAGCCAGCACTTCCTCTTCGGGAGATCATCCGTCGGCTGGAGATGGCCTACTGCCAGCA
CATTGGTGTGGAGTTCATGTTCATTAACGATTTGGAGCAATGCCAGTGGATCCGGCAGAAGTTT
GAGACCCCTGGGATCATGCAGTTCACCAATGAGGAGAAGCGGACCCTGCTGGCCAGGCTTGTAC
GGTCCACCAGGTTTGAGGAGTTCCTGCAGCGAAAGTGGTCCTCTGAGAAGCGTTTTGGTCTGGA
AGGCTGTGAGGTGCTGATCCCTGCCCTCAAGACAATCATTGACATGTCAAGTGCAAATGGAGTG
GACTATGTGATCATGGGGATGCCACACAGAGGACGACTGAACGTGCTAGCCAATGTCATCAGGA
AGGAGCTGGAGCAGATATTCTGTCAGTTTGACTCGAAGCTGGAGGCAGCTGATGAGGGTTCCGG
GGACATGAAGTACCACCTGGGCATGTATCACCGAAGGATCAACCGTGTGACCGACAGAAACATC
ACTCTGTCCTTGGTGGCTAACCCTTCCCACTTAGAGGCTGCTGACCCTGTAGTGATGGGAAAGA
CCAAAGCTGAACAGTTCTACTGTGGAGACACTGAAGGGAAAAAGGTGATGTCTATCCTGCTGCA
TGGGGATGCTGCCTTTGCTGGCCAGGGTATCGTGTATGAGACCTTCCATCTCAGCGACCTGCCA
TCCTATACAACCCACGGCACCGTTCACGTGGTTGTCAACAACCAGATTGGCTTCACCACAGACC
CTCGGATGGCCCGCTCTTCTCCCTACCCCACTGATGTGGCCCGAGTGGTGAACGCCCCCATTTT
CCATGTCAACTCAGATGACCCTGAAGCTGTCATGTATGTATGCAAGGTGGCAGCTGAGTGGAGA
AACACCTTCCACAAGGATGTTGTTGTTGATCTGGTGTGTTATCGACGAAATGGCCACAACGAGA
TGGATGAACCTATGTTCACACAGCCACTCATGTACAAGCAGATCCGTAAGCAGAAGCCGGTACT
GCAGAAGTATGCAGAATTGCTGGTATCCCAGGGGGTCGTCAACCAGCCCGAATATGAGGAGGAA
ATCTCCAAGTACGATAAGATCTGTGAGGAAGCATTTACCAGATCCAAAGATGAGAAGATCTTGC
ACATCAAGCACTGGCTGGATTCCCCCTGGCCTGGCTTTTTCACCCTGGATGGACAGCCCAGGAG
CATGACCTGCCCCTCCACTGGCCTGGAGGAGGACATCTTGACCCACATTGGGAATGTGGCCAGT
TCTGTACCTGTGGAGAACTTTACCATCCATGGAGGGCTGAGCCGGATCTTGAAGACTCGCAGAG
AGCTTGTGACAAACCGGACTGTGGACTGGGCCCTGGCAGAGTACATGGCGTTCGGATCACTCCT
GAAGGAAGGCATCCATGTCCGGCTGAGTGGCCAGGACGTGGAGCGGGGTACCTTCAGCCATCGC
CACCATGTGCTCCATGACCAGAATGTGGACAAAAGAACCTGCATCCCCATGAACCACCTTTGGC
CTAACCAGGCCCCTTACACCGTGTGCAACAGCTCGTTGTCTGAGTATGGTGTCCTGGGCTTTGA
ACTGGGCTTTGCCATGGCTAGCCCTAATGCTCTGGTTCTCTGGGAGGCCCAGTTTGGTGATTTC
AACAACATGGCACAGTGCATCATTGACCAGTTCATCTGCCCAGGACAGGCAAAGTGGGTGCGGC
AGAATGGCATCGTGCTCCTGCTACCTCACGGCATGGAAGGCATGGGTCCCGAGCATTCCTCTGC
CCGTCCAGAGAGGTTTCTGCAGATGTGCAATGATGACCCAGATGTCCTGCCTAACCTGCAGGAG
GAAAACTTTGACATCAGTCAGCTCTACGACTGCAACTGGATTGTCGTCAACTGCTCCACCCCTG
GCAACTTCTTCCACGTGCTGCGACGACAGATCTTGCTGCCCTTCCGGAAGCCGTTAATCGTCTT
CACTCCCAAATCCCTCCTGCGCCACCCTGAGGCAAGAACTAGCTTTGATGAGATGCTGCCAGGA
ACCCACTTCCAGCGTGTGATCCCAGAAGATGGACCTGCAGCTCAGAACCCAGACAAAGTCAAGA
GGCTTCTCTTCTGCACTGGCAAGGTGTACTATGACCTCACCCGAGAGCGCAAAGCCAGGGACAT
GGCAGAGGAGGTGGCTATTACAAGGATTGAGCAGCTGTCACCATTCCCCTTCGACCTCCTGCTG
AAAGAGGCACAGAAGTATCCCAATGCTGAGCTGGCCTGGTGCCAGGAAGAGCACAAGAATCAAG
GCTACTATGACTATGTCAAGCCAAGACTTCGGACCACCATTGACCGTGCTAAGCCTGTCTGGTA
TGCTGGCCGAGACCCAGCAGCCGCTCCAGCCACTGGCAACAAGAAGACCCACCTGACAGAGCTG
CAGCGCTTTCTGGACACAGCCTTTGACCTGGACGCCTTCAAGAAATTCTCTTAGATGCTCCTGG
AGTTGATCCGGCCATGGCCCCCCTGTGTCCATGACGCTCTTTGCTTCTCAACTAAAGAATAGTG
CCTCTGCACTGTCCACACGTCTGCCCTTCGCTGTGCCACACACCGCCCCTGTTCTCATAGGAAT
TAAGTTGTCCACTCCAGTGCCCAGCTGCTCCCCGGCCACAGCCCAGCCTGGCTGACTTCTCTCA
GGCTGCACACCTTTCACGAAGACCATAAGGAGCAGGATGAGGAAAGGGAGCCCTCTCAGGACAT
CCTAGGGAAGGCAGACCTGGCCCCCCCATCCTCACTGTGTAATCCTCCAGGGTAGGAACAGAAA
TCCTATGTGGCTTCCCACAGTACTAGCACTCAGTCCTTGTCACCCATCAAGTCACAGATTCAAG
ACTAGGAGTAGTTTTGTCTTGCTAGGGCCAAGCTGAGAGCTCCTGGAGGAGCTGTAGCTGGCAG
GGTTTGGGTGTCATCTAGACGTTAAGTGCGTGGAGAATGGCGTGGGGTTTTTGGAGAGGCTTTA
GCAGTGGTGTTAGGTCAGCTCTGCTACCCTTCTTGGATTTCGGGCTACATGTGGGAAATTTGCC
CTAACTACCGAGTCAGGAGTGATTGGCTCTGAGTAAGGCCCAGAAGCTCCCTTGGGTCCCAAAC
CCCAGGCACTGGCTGCCTCTTGGTCCTGCTGACTCTTCTCTCCTAACCCCAGCCACTTAATTTT
CTCTGTTGTTCCCTCGAACACACGGAAGCTGTTGATGAATCCTTTTCTTTGCTGTGCCAAGGCA
GGTCAGAAGCAGATCAATGGATAAGGGCAAGGTGTCCCGAGGAGCCAGCTGTCCTTCCTCCCTC
TTTAGACCTCCACAGGGACAGACCTGATTTATTTATTTTGGTTTAAAAAAAAAGGAAATGAAAA
AAAGAACAACCAACTTTGCATTGCATCGGCTTGACCCATAAACTAAGTTATCATGGCCAGCCTG
TCTGCTGTCATTCTGTGCTCCGCCTTCCCCCACCTGCCTGAGAACAGACTCCTCATTGGGGTGG
GGCTGCTAGCTGCGTTTGCCAACTGGATGTGTACCGCACAGTTTGCTGTACTCCCTCACGGGCA
GCAGCCATTGTAGGTAGGTACTGGATGAGACGCAGGTTAGCAACTCTGCCTGGACCGTACTCTG
CACTCTGGCCTGTGCATTTGATAGTTGAGTCTGCATTCTACGTGGGCTTATCTTAATGGCAGTC
TTTTAGACTGCAAATCTGAGGCCTGGACACCCAGCCTGACTATGAGCCTTGATCAACACAGGTC
CTCATTTTCTAGGCTGTACCAACCCAAGCCTGAGCCTTCAATGGCTCATTCCTCCTGCTACCCT
GTGTATCTTGATTTTAGGCAGGCCTAATAACTACAGTCAGCACCAGGAGAGAGTGTGCTAGGAT
AGGAACAGTGCCCCTTACTCTCAGAGGTGGGAGGACAGGAGTAGTTGTTTCTGCCTGTGGTCAG
CGTATACTTGTTTGCCACCTGGTGTCCCCTTCTCCCTTGGAACAGCCAATGTTTTGCACACAGA
ACTGGACTAGAGAGAGAGAAGCTTAGGCAGGTGTGGGTGAGTGCAGCACAGGCTGTCCGTAAGC
AGTAAGAGGGCTGGCAGTAAGTACACCTGGGAACAGCTGCAGGAGAACTAGTGCATTTATTTGG
GGGTGGGGGGTTGGGAGGAGCTATTTATGCCCCCTAGGGAGGTGGCCAAGATCTCTGGGGCAAG
GTTTATGTGGCCATAGACCCTTGAGAGTTTTGTTTTTCTAGAATCAAACTGGCTTTTCTTATTC
ATATACTTAGTAATAAACAGGGTAGAACTGTA

hide sequence

RefSeq Acc Id:

XM_039092218 ⟹ XP_038948146

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	14	81,150,021 - 81,217,479 (+)	NCBI

RefSeq Acc Id:

XM_039092219 ⟹ XP_038948147

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	14	81,150,438 - 81,217,479 (+)	NCBI

RefSeq Acc Id:

XM_039092220 ⟹ XP_038948148

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	14	81,150,114 - 81,217,479 (+)	NCBI

RefSeq Acc Id:

XM_039092222 ⟹ XP_038948150

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	14	81,150,021 - 81,217,479 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001017461	(Get FASTA)	NCBI Sequence Viewer
	XP_006251508	(Get FASTA)	NCBI Sequence Viewer
	XP_006251510	(Get FASTA)	NCBI Sequence Viewer
	XP_038948146	(Get FASTA)	NCBI Sequence Viewer
	XP_038948147	(Get FASTA)	NCBI Sequence Viewer
	XP_038948148	(Get FASTA)	NCBI Sequence Viewer
	XP_038948150	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH83811	(Get FASTA)	NCBI Sequence Viewer
	EDM00340	(Get FASTA)	NCBI Sequence Viewer
	EDM00341	(Get FASTA)	NCBI Sequence Viewer
	EDM00342	(Get FASTA)	NCBI Sequence Viewer
	EDM00343	(Get FASTA)	NCBI Sequence Viewer
	EDM00344	(Get FASTA)	NCBI Sequence Viewer
	EDM00345	(Get FASTA)	NCBI Sequence Viewer
	EDM00346	(Get FASTA)	NCBI Sequence Viewer
	EDM00347	(Get FASTA)	NCBI Sequence Viewer
	Q5XI78	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_001017461 ⟸ NM_001017461
- Peptide Label:	precursor
- UniProtKB:	Q5XI78 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MFHLRTCAAKLRPLTASQTVKTFSQNKPAAIRTFQQIRCYSAPVAAEPFLSGTSSNYVEEMYCA WLENPKSVHKSWDIFFRNTNAGAPPGTAYQSPLSLSRSSLATMAHAQSLVEAQPNVDKLVEDHL AVQSLIRAYQIRGHHVAQLDPLGILDADLDSSVPADIISSTDKLGFYGLHESDLDKVFHLPTTT FIGGQEPALPLREIIRRLEMAYCQHIGVEFMFINDLEQCQWIRQKFETPGIMQFTNEEKRTLLA RLVRSTRFEEFLQRKWSSEKRFGLEGCEVLIPALKTIIDMSSANGVDYVIMGMPHRGRLNVLAN VIRKELEQIFCQFDSKLEAADEGSGDMKYHLGMYHRRINRVTDRNITLSLVANPSHLEAADPVV MGKTKAEQFYCGDTEGKKVMSILLHGDAAFAGQGIVYETFHLSDLPSYTTHGTVHVVVNNQIGF TTDPRMARSSPYPTDVARVVNAPIFHVNSDDPEAVMYVCKVAAEWRNTFHKDVVVDLVCYRRNG HNEMDEPMFTQPLMYKQIRKQKPVLQKYAELLVSQGVVNQPEYEEEISKYDKICEEAFTRSKDE KILHIKHWLDSPWPGFFTLDGQPRSMTCPSTGLEEDILTHIGNVASSVPVENFTIHGGLSRILK TRRELVTNRTVDWALAEYMAFGSLLKEGIHVRLSGQDVERGTFSHRHHVLHDQNVDKRTCIPMN HLWPNQAPYTVCNSSLSEYGVLGFELGFAMASPNALVLWEAQFGDFNNMAQCIIDQFICPGQAK WVRQNGIVLLLPHGMEGMGPEHSSARPERFLQMCNDDPDVLPNLQEENFDISQLYDCNWIVVNC STPGNFFHVLRRQILLPFRKPLIVFTPKSLLRHPEARTSFDEMLPGTHFQRVIPEDGPAAQNPD KVKRLLFCTGKVYYDLTRERKARDMAEEVAITRIEQLSPFPFDLLLKEAQKYPNAELAWCQEEH KNQGYYDYVKPRLRTTIDRAKPVWYAGRDPAAAPATGNKKTHLTELQRFLDTAFDLDAFKKFS hide sequence

RefSeq Acc Id:

XP_006251510 ⟸ XM_006251448

- Peptide Label:

isoform X4

- Sequence:

show sequence

MFHLRTCAAKLRPLTASQTVKTFSQNKPAAIRTFQQIRCYSAPVAAEPFLSGTSSNYVEEMYCA
WLENPKSVHKSWDIFFRNTNAGAPPGTAYQSPLSLSRSSLATMAHAQSLVEAQPNVDKLVEDHL
AVQSLIRAYQVRGHQIAKLDPLGISCVNFDDAPVTVSSNVGFYGLHESDLDKVFHLPTTTFIGG
QEPALPLREIIRRLEMAYCQHIGVEFMFINDLEQCQWIRQKFETPGIMQFTNEEKRTLLARLVR
STRFEEFLQRKWSSEKRFGLEGCEVLIPALKTIIDMSSANGVDYVIMGMPHRGRLNVLANVIRK
ELEQIFCQFDSKLEAADEGSGDMKYHLGMYHRRINRVTDRNITLSLVANPSHLEAADPVVMGKT
KAEQFYCGDTEGKKVMSILLHGDAAFAGQGIVYETFHLSDLPSYTTHGTVHVVVNNQIGFTTDP
RMARSSPYPTDVARVVNAPIFHVNSDDPEAVMYVCKVAAEWRNTFHKDVVVDLVCYRRNGHNEM
DEPMFTQPLMYKQIRKQKPVLQKYAELLVSQGVVNQPEYEEEISKYDKICEEAFTRSKDEKILH
IKHWLDSPWPGFFTLDGQPRSMTCPSTGLEEDILTHIGNVASSVPVENFTIHGGLSRILKTRRE
LVTNRTVDWALAEYMAFGSLLKEGIHVRLSGQDVERGTFSHRHHVLHDQNVDKRTCIPMNHLWP
NQAPYTVCNSSLSEYGVLGFELGFAMASPNALVLWEAQFGDFNNMAQCIIDQFICPGQAKWVRQ
NGIVLLLPHGMEGMGPEHSSARPERFLQMCNDDPDVLPNLQEENFDISQLYDCNWIVVNCSTPG
NFFHVLRRQILLPFRKPLIVFTPKSLLRHPEARTSFDEMLPGTHFQRVIPEDGPAAQNPDKVKR
LLFCTGKVYYDLTRERKARDMAEEVAITRIEQLSPFPFDLLLKEAQKYPNAELAWCQEEHKNQG
YYDYVKPRLRTTIDRAKPVWYAGRDPAAAPATGNKKTHLTELQRFLDTAFDLDAFKKFS

hide sequence

RefSeq Acc Id:	XP_006251508 ⟸ XM_006251446
- Peptide Label:	isoform X3
- UniProtKB:	Q5XI78 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MFHLRTCAAKLRPLTASQTVKTFSQNKPAAIRTFQQIRCYSAPVAAEPFLSGTSSNYVEEMYCA WLENPKSVHKSWDIFFRNTNAGAPPGTAYQSPLSLSRSSLATMAHAQSLVEAQPNVDKLVEDHL AVQSLIRAYQIRGHHVAQLDPLGILDADLDSSVPADIISSTDKLGFYGLHESDLDKVFHLPTTT FIGGQEPALPLREIIRRLEMAYCQHIGVEFMFINDLEQCQWIRQKFETPGIMQFTNEEKRTLLA RLVRSTRFEEFLQRKWSSEKRFGLEGCEVLIPALKTIIDMSSANGVDYVIMGMPHRGRLNVLAN VIRKELEQIFCQFDSKLEAADEGSGDMKYHLGMYHRRINRVTDRNITLSLVANPSHLEAADPVV MGKTKAEQFYCGDTEGKKVMSILLHGDAAFAGQGIVYETFHLSDLPSYTTHGTVHVVVNNQIGF TTDPRMARSSPYPTDVARVVNAPIFHVNSDDPEAVMYVCKVAAEWRNTFHKDVVVDLVCYRRNG HNEMDEPMFTQPLMYKQIRKQKPVLQKYAELLVSQGVVNQPEYEEEISKYDKICEEAFTRSKDE KILHIKHWLDSPWPGFFTLDGQPRSMTCPSTGLEEDILTHIGNVASSVPVENFTIHGGLSRILK TRRELVTNRTVDWALAEYMAFGSLLKEGIHVRLSGQDVERGTFSHRHHVLHDQNVDKRTCIPMN HLWPNQAPYTVCNSSLSEYGVLGFELGFAMASPNALVLWEAQFGDFNNMAQCIIDQFICPGQAK WVRQNGIVLLLPHGMEGMGPEHSSARPERFLQMCNDDPDVLPNLQEENFDISQLYDCNWIVVNC STPGNFFHVLRRQILLPFRKPLIVFTPKSLLRHPEARTSFDEMLPGTHFQRVIPEDGPAAQNPD KVKRLLFCTGKVYYDLTRERKARDMAEEVAITRIEQLSPFPFDLLLKEAQKYPNAELAWCQEEH KNQGYYDYVKPRLRTTIDRAKPVWYAGRDPAAAPATGNKKTHLTELQRFLDTAFDLDAFKKFS hide sequence

RefSeq Acc Id:

ENSRNOP00000054026 ⟸ ENSRNOT00000057199

RefSeq Acc Id:

ENSRNOP00000068674 ⟸ ENSRNOT00000083394

RefSeq Acc Id:	XP_038948150 ⟸ XM_039092222
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038948146 ⟸ XM_039092218
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038948148 ⟸ XM_039092220
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038948147 ⟸ XM_039092219
- Peptide Label:	isoform X1

RefSeq Acc Id:

ENSRNOP00000091120 ⟸ ENSRNOT00000101150

RefSeq Acc Id:

ENSRNOP00000086308 ⟸ ENSRNOT00000095078

Transcriptome

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

Promoters

RGD ID:

13699472

Promoter ID:

EPDNEW_R9996

Type:

initiation region

Name:

LOC103693780_1

Description:

2-oxoglutarate dehydrogenase, mitochondrial-like

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	14	86,415,001 - 86,415,061	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

ACI/EurMcwi (MCW)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

ACI/N (MCW)

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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-Lx/CubMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/SsN (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/SsN (MCW)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH2/CubMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH3/CubMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

Buf/N (MCW)

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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)

DA/OlaHsd (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/DuCrl (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/N (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/NCrl (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/NCrl (RGD)

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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

F344/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (MCW)

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

FXLE16/Stm (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE18/Stm (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

GH/OmrMcwi (MCW)

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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/FarMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

GK/Ox (RGD)

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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

HXB10/IpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB2/IpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB20/IpcvMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB31/IpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB4/IpcvMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (RGD)

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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 (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEW/Crl (RGD)

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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

LEXF10A/StmMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF11/Stm (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1A/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1C/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF2B/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF3/Stm (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF4/Stm (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LH/MavRrrc (RGD)

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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/MavRrrcAek (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LL/MavRrrc (RGD)

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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/MavRrrcAek (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LN/MavRrrc (RGD)

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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/MavRrrcAek (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/N (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/N (MCW)

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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

M520/NRrrcMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MHS/Gib (RGD)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MR/N (MCW)

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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

MWF/Hsd (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

PVG/Seac (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SBH/Ygl (MCW)

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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

SHR/OlalpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHRSP/A3NCrl (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHRSP/Gcrc (RGD)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SR/JrHsd (MCW)

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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 (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SS/JrHsdMcwi (MCW)

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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

WAG/RijCrl (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/Gcrc (RGD)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/N (MCW)

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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 (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/NCrl (RGD)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WN/N (MCW)

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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:1561359	AgrOrtholog
	RGD:9122992	AgrOrtholog
Ensembl Genes	ENSRNOG00000005130	Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000054026	UniProtKB/Swiss-Prot
	ENSRNOP00000068674	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000057199	UniProtKB/Swiss-Prot
	ENSRNOT00000083394	UniProtKB/Swiss-Prot
Gene3D-CATH	3.40.50.11610	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7110182	IMAGE-MGC_LOAD
InterPro	2-oxogl_dehyd_N	UniProtKB/Swiss-Prot
	2oxoglutarate_DH_E1	UniProtKB/Swiss-Prot
	DH_E1	UniProtKB/Swiss-Prot
	KGD_C	UniProtKB/Swiss-Prot
	KGD_C_sf	UniProtKB/Swiss-Prot
	THDP-binding	UniProtKB/Swiss-Prot
	Transketolase-like_Pyr-bd	UniProtKB/Swiss-Prot
KEGG Report	rno:360975	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:94869	IMAGE-MGC_LOAD
NCBI Gene	360975	ENTREZGENE
PANTHER	PTHR23152	UniProtKB/Swiss-Prot
Pfam	2-oxogl_dehyd_N	UniProtKB/Swiss-Prot
	E1_dh	UniProtKB/Swiss-Prot
	OxoGdeHyase_C	UniProtKB/Swiss-Prot
	Transket_pyr	UniProtKB/Swiss-Prot
PhenoGen	Ogdh	PhenoGen
PIRSF	Oxoglu_dh_E1	UniProtKB/Swiss-Prot
SMART	Transket_pyr	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF52518	UniProtKB/Swiss-Prot
TIGRFAMs	2oxo_dh_E1	UniProtKB/Swiss-Prot
UniProt	ODO1_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-03-09	Ogdh	oxoglutarate dehydrogenase	LOC103693780	2-oxoglutarate dehydrogenase, mitochondrial-like	Data Merged	737654	PROVISIONAL
2016-03-22	Ogdh	oxoglutarate dehydrogenase	Ogdh	oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2014-08-25	LOC103693780	2-oxoglutarate dehydrogenase, mitochondrial-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2008-09-25	Ogdh	oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)	Ogdh	oxoglutarate dehydrogenase (lipoamide)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-05	Ogdh	oxoglutarate dehydrogenase (lipoamide)	LOC360975	similar to oxoglutarate dehydrogenase (lipoamide)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-02-09	LOC360975	similar to oxoglutarate dehydrogenase (lipoamide)			Symbol and Name status set to provisional	70820	PROVISIONAL

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

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)