Ogdh (oxoglutarate dehydrogenase) - Rat Genome Database

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Gene: Ogdh (oxoglutarate dehydrogenase) Rattus norvegicus
Analyze
Symbol: Ogdh
Name: oxoglutarate dehydrogenase
RGD ID: 1561359
Description: Exhibits 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. Localizes to mitochondrion and 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 (+)-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 ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21481,150,021 - 81,217,479 (+)NCBI
Rnor_6.0 Ensembl1486,414,949 - 86,613,327 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01486,414,924 - 86,481,903 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01487,376,110 - 87,442,862 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41487,022,994 - 87,090,768 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1480,033,036 - 80,099,636 (+)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-alpha-tocopherol  (EXP)
(+)-dexrazoxane  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(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)
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)
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)
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)
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)
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)
vitamin E  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

References

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 AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21481,150,021 - 81,217,479 (+)NCBI
Rnor_6.0 Ensembl1486,414,949 - 86,613,327 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01486,414,924 - 86,481,903 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01487,376,110 - 87,442,862 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41487,022,994 - 87,090,768 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1480,033,036 - 80,099,636 (+)NCBICelera
Cytogenetic Map14q21NCBI
OGDH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl744,606,572 - 44,709,066 (+)EnsemblGRCh38hg38GRCh38
GRCh38744,606,572 - 44,709,066 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37744,646,226 - 44,748,665 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36744,612,696 - 44,715,194 (+)NCBINCBI36hg18NCBI36
Build 34744,419,410 - 44,521,908NCBI
Celera744,744,966 - 44,847,513 (+)NCBI
Cytogenetic Map7p13NCBI
HuRef744,530,268 - 44,633,659 (+)NCBIHuRef
CHM1_1744,650,491 - 44,752,987 (+)NCBICHM1_1
CRA_TCAGchr7v2744,685,639 - 44,788,190 (+)NCBI
Ogdh
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39116,241,597 - 6,309,094 (+)NCBIGRCm39mm39
GRCm39 Ensembl116,241,633 - 6,306,642 (+)Ensembl
GRCm38116,291,597 - 6,359,094 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl116,291,633 - 6,356,642 (+)EnsemblGRCm38mm10GRCm38
MGSCv37116,191,600 - 6,259,096 (+)NCBIGRCm37mm9NCBIm37
MGSCv36116,191,600 - 6,268,605 (+)NCBImm8
Celera116,773,507 - 6,842,010 (+)NCBICelera
Cytogenetic Map11A1NCBI
Ogdh
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554567,415,589 - 7,485,515 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554567,416,343 - 7,484,889 (-)NCBIChiLan1.0ChiLan1.0
OGDH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1745,390,679 - 45,492,000 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl745,409,148 - 45,491,636 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0745,321,559 - 45,422,515 (+)NCBIMhudiblu_PPA_v0panPan3
OGDH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha162,363,764 - 2,432,958 (+)NCBI
ROS_Cfam_1.01614,428,589 - 14,497,803 (-)NCBI
UNSW_CanFamBas_1.01614,059,830 - 14,129,291 (-)NCBI
UU_Cfam_GSD_1.01614,040,718 - 14,109,906 (-)NCBI
Ogdh
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118100,295,062 - 100,372,678 (+)NCBI
SpeTri2.0NW_00493647819,506,845 - 19,584,411 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
OGDH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1850,609,418 - 50,684,964 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11850,609,415 - 50,684,990 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21855,497,953 - 55,588,004 (-)NCBISscrofa10.2Sscrofa10.2susScr3
OGDH
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12113,975,825 - 14,070,216 (-)NCBI
ChlSab1.1 Ensembl2113,973,845 - 14,070,731 (-)Ensembl
Ogdh
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247407,481,719 - 7,549,809 (-)NCBI

Position Markers
D14Rat20  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01486,468,309 - 86,468,463NCBIRnor6.0
Rnor_6.01486,601,370 - 86,601,524NCBIRnor6.0
Rnor_5.01487,430,137 - 87,430,291UniSTSRnor5.0
RGSC_v3.41487,078,650 - 87,079,096RGDRGSC3.4
RGSC_v3.41487,078,921 - 87,079,075UniSTSRGSC3.4
RGSC_v3.11487,098,066 - 87,098,220RGD
Celera1480,087,790 - 80,087,944UniSTS
RH 3.4 Map14584.8UniSTS
RH 3.4 Map14584.8RGD
RH 2.0 Map14716.2RGD
SHRSP x BN Map1444.91RGD
Cytogenetic Map14q21UniSTS
RH133330  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01486,480,741 - 86,480,925NCBIRnor6.0
Rnor_6.01486,613,801 - 86,613,985NCBIRnor6.0
Rnor_5.01487,442,569 - 87,442,753UniSTSRnor5.0
RGSC_v3.41487,091,353 - 87,091,537UniSTSRGSC3.4
Celera1480,100,221 - 80,100,405UniSTS
RH 3.4 Map14582.5UniSTS
Cytogenetic Map14q21UniSTS
BF387217  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01486,435,231 - 86,435,401NCBIRnor6.0
Rnor_5.01487,397,059 - 87,397,229UniSTSRnor5.0
RGSC_v3.41487,043,964 - 87,044,134UniSTSRGSC3.4
Celera1480,053,820 - 80,053,990UniSTS
RH 3.4 Map14578.0UniSTS
Cytogenetic Map14q21UniSTS
RH135290  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01486,421,714 - 86,421,919NCBIRnor6.0
Rnor_5.01487,383,542 - 87,383,747UniSTSRnor5.0
RGSC_v3.41487,030,611 - 87,030,816UniSTSRGSC3.4
Celera1480,040,436 - 80,040,641UniSTS
RH 3.4 Map14576.1UniSTS
Cytogenetic Map14q21UniSTS
MARC_4335-4336:996679558:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01486,479,420 - 86,480,005NCBIRnor6.0
Rnor_6.01486,612,480 - 86,613,065NCBIRnor6.0
Rnor_5.01487,441,248 - 87,441,833UniSTSRnor5.0
RGSC_v3.41487,090,032 - 87,090,617UniSTSRGSC3.4
Celera1480,098,900 - 80,099,485UniSTS
Cytogenetic Map14q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1443910761105074364Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1451818462105074364Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1460980905105980905Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1460980905105980905Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)146187332388870994Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1461993178106993178Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1463548095108548095Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)147339146788870994Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765102549388Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)1478172765102549388Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1478172765102549388Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765102549388Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765106641756Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1478446303110402569Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1480049285115493446Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1480049285115493446Rat
631213Bw60Body weight QTL604.51retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)1485307663106641756Rat

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


Reference Sequences
RefSeq Acc Id: ENSRNOT00000057199   ⟹   ENSRNOP00000054026
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1486,414,976 - 86,480,156 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000083394   ⟹   ENSRNOP00000068674
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1486,414,949 - 86,613,327 (+)Ensembl
RefSeq Acc Id: NM_001017461   ⟹   NP_001017461
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21481,150,101 - 81,216,601 (+)NCBI
Rnor_6.01486,414,976 - 86,480,156 (+)NCBI
Rnor_5.01487,376,110 - 87,442,862 (+)NCBI
RGSC_v3.41487,022,994 - 87,090,768 (+)RGD
Celera1480,033,036 - 80,099,636 (+)RGD
Sequence:
RefSeq Acc Id: XM_006251446   ⟹   XP_006251508
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21481,150,116 - 81,217,479 (+)NCBI
Rnor_6.01486,414,937 - 86,481,903 (+)NCBI
Rnor_5.01487,376,110 - 87,442,862 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251447   ⟹   XP_006251509
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01486,415,313 - 86,481,903 (+)NCBI
Rnor_5.01487,376,110 - 87,442,862 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251448   ⟹   XP_006251510
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21481,150,021 - 81,217,479 (+)NCBI
Rnor_6.01486,414,924 - 86,481,903 (+)NCBI
Rnor_5.01487,376,110 - 87,442,862 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039092218   ⟹   XP_038948146
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21481,150,021 - 81,217,479 (+)NCBI
RefSeq Acc Id: XM_039092219   ⟹   XP_038948147
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21481,150,438 - 81,217,479 (+)NCBI
RefSeq Acc Id: XM_039092220   ⟹   XP_038948148
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21481,150,114 - 81,217,479 (+)NCBI
RefSeq Acc Id: XM_039092222   ⟹   XP_038948150
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21481,150,021 - 81,217,479 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001017461   ⟸   NM_001017461
- Peptide Label: precursor
- UniProtKB: Q5XI78 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006251510   ⟸   XM_006251448
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006251508   ⟸   XM_006251446
- Peptide Label: isoform X3
- UniProtKB: Q5XI78 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006251509   ⟸   XM_006251447
- Peptide Label: isoform X1
- 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

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 AssemblyChrPosition (strand)Source
Rnor_6.01486,415,001 - 86,415,061EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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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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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
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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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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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)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561359 AgrOrtholog
  RGD:9122992 AgrOrtholog
Ensembl Genes ENSRNOG00000005130 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000054026 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000068674 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000057199 ENTREZGENE, 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:103693780 UniProtKB/Swiss-Prot
  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