Pdha1 (pyruvate dehydrogenase E1 subunit alpha 1) - Rat Genome Database

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Gene: Pdha1 (pyruvate dehydrogenase E1 subunit alpha 1) Rattus norvegicus
Analyze
Symbol: Pdha1
Name: pyruvate dehydrogenase E1 subunit alpha 1
RGD ID: 3286
Description: Exhibits pyruvate dehydrogenase (acetyl-transferring) activity. Involved in acetyl-CoA biosynthetic process from pyruvate. Localizes to mitochondrion and pyruvate dehydrogenase complex. Used to study pyruvate decarboxylase deficiency. Human ortholog(s) of this gene implicated in pyruvate decarboxylase deficiency. Orthologous to human PDHA1 (pyruvate dehydrogenase E1 subunit alpha 1); PARTICIPATES IN citric acid cycle pathway; fumaric aciduria pathway; Leigh disease pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: MGC114215; MGC94854; PDHE1-A type I; pyruvate dehydrogenase (lipoamide) alpha 1; pyruvate dehydrogenase alpha 1; pyruvate dehydrogenase E1 alpha 1; pyruvate dehydrogenase E1 alpha 1 subunit; pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial; pyruvate dehydrogenase E1alpha subunit
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Pdha1l1  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X34,700,481 - 34,714,309 (+)NCBI
Rnor_6.0 EnsemblX37,329,779 - 37,343,410 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X37,329,779 - 37,343,410 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X37,640,725 - 37,654,356 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X55,899,491 - 55,913,319 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X55,952,967 - 55,966,789 (+)NCBI
CeleraX35,373,056 - 35,386,884 (+)NCBICelera
Cytogenetic MapXq14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP)
2,3,7,8-tetrabromodibenzodioxine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
Aroclor 1254  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bezafibrate  (EXP)
bisphenol A  (EXP,ISO)
cadmium atom  (ISO)
ciguatoxin CTX1B  (ISO)
cobalt dichloride  (ISO)
D-glucose  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dichloroacetic acid  (ISO)
dinophysistoxin 1  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
duvoglustat  (ISO)
ethanol  (EXP,ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
Fusaric acid  (ISO)
genistein  (EXP)
gentamycin  (EXP)
glucose  (ISO)
hydrogen peroxide  (ISO)
isotretinoin  (ISO)
kojic acid  (ISO)
maneb  (ISO)
metformin  (ISO)
methamphetamine  (EXP)
methyl methanesulfonate  (ISO)
Methylazoxymethanol acetate  (EXP)
methylmercury chloride  (ISO)
methylparaben  (ISO)
N-acetyl-L-cysteine  (ISO)
nefazodone  (EXP)
okadaic acid  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
PCB138  (EXP)
perfluorooctanoic acid  (ISO)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
quinoline  (ISO)
resveratrol  (EXP,ISO)
sodium dodecyl sulfate  (ISO)
sodium fluoride  (ISO)
superoxide  (ISO)
titanium dioxide  (ISO)
triclosan  (ISO)
valproic acid  (ISO)
zearalenone  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:2025639   PMID:11708858   PMID:14651853   PMID:16641100   PMID:17634366   PMID:18586888   PMID:18614015   PMID:19081061   PMID:19429050   PMID:20833797   PMID:21630459   PMID:22809973  
PMID:26503465   PMID:27871875   PMID:28376086   PMID:29476059  


Genomics

Comparative Map Data
Pdha1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X34,700,481 - 34,714,309 (+)NCBI
Rnor_6.0 EnsemblX37,329,779 - 37,343,410 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X37,329,779 - 37,343,410 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X37,640,725 - 37,654,356 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X55,899,491 - 55,913,319 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X55,952,967 - 55,966,789 (+)NCBI
CeleraX35,373,056 - 35,386,884 (+)NCBICelera
Cytogenetic MapXq14NCBI
PDHA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX19,343,893 - 19,361,718 (+)EnsemblGRCh38hg38GRCh38
GRCh38X19,343,906 - 19,361,718 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X19,362,045 - 19,379,836 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X19,271,972 - 19,287,886 (+)NCBINCBI36hg18NCBI36
Build 34X19,121,707 - 19,137,622NCBI
CeleraX23,483,337 - 23,501,163 (+)NCBI
Cytogenetic MapXp22.12NCBI
HuRefX17,111,170 - 17,129,001 (+)NCBIHuRef
CHM1_1X19,393,050 - 19,410,882 (+)NCBICHM1_1
Pdha1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X158,905,215 - 158,921,426 (-)NCBIGRCm39mm39
GRCm39 EnsemblX158,905,205 - 158,921,409 (-)Ensembl
GRCm38X160,122,219 - 160,138,430 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX160,122,209 - 160,138,413 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X156,560,151 - 156,576,268 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X155,466,324 - 155,482,441 (-)NCBImm8
CeleraX143,366,647 - 143,382,812 (-)NCBICelera
Cytogenetic MapXF4NCBI
cM MapX73.95NCBI
Pdha1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495558697,172 - 114,928 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495558698,492 - 114,927 (-)NCBIChiLan1.0ChiLan1.0
PDHA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X19,330,622 - 19,348,443 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX19,330,508 - 19,348,443 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X11,967,944 - 11,985,837 (+)NCBIMhudiblu_PPA_v0panPan3
PDHA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X15,338,364 - 15,354,011 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX15,338,202 - 15,387,458 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X15,298,232 - 15,314,012 (+)NCBI
UMICH_Zoey_3.1X15,346,993 - 15,362,754 (+)NCBI
UNSW_CanFamBas_1.0X15,348,770 - 15,364,534 (+)NCBI
UU_Cfam_GSD_1.0X15,416,047 - 15,431,830 (+)NCBI
Pdha1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X8,400,113 - 8,416,930 (+)NCBI
SpeTri2.0NW_004936844889,720 - 906,631 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDHA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX15,700,050 - 15,718,904 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X15,699,924 - 15,718,908 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X16,947,200 - 16,966,053 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PDHA1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X17,804,123 - 17,820,087 (+)NCBI
Vero_WHO_p1.0NW_02366605619,671,536 - 19,689,681 (+)NCBI
Pdha1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248294,154,143 - 4,170,726 (+)NCBI

Position Markers
AI170398  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X34,714,460 - 34,714,644 (+)MAPPER
Rnor_6.0X37,343,562 - 37,343,745NCBIRnor6.0
Rnor_5.0X37,654,508 - 37,654,691UniSTSRnor5.0
RGSC_v3.4X55,913,471 - 55,913,654UniSTSRGSC3.4
CeleraX35,387,036 - 35,387,219UniSTS
RH 3.4 MapX500.8UniSTS
Cytogenetic MapXq21UniSTS
RH144218  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X34,712,636 - 34,712,737 (+)MAPPER
Rnor_6.0X37,341,738 - 37,341,838NCBIRnor6.0
Rnor_5.0X37,652,684 - 37,652,784UniSTSRnor5.0
RGSC_v3.4X55,911,647 - 55,911,747UniSTSRGSC3.4
CeleraX35,385,212 - 35,385,312UniSTS
Cytogenetic MapXq21UniSTS
AA819807  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X34,713,892 - 34,714,106 (+)MAPPER
mRatBN7.21682,511,694 - 82,511,908 (-)MAPPER
mRatBN7.2X34,713,892 - 34,714,106 (-)MAPPER
mRatBN7.21682,511,694 - 82,511,908 (+)MAPPER
Rnor_6.0X37,342,994 - 37,343,207NCBIRnor6.0
Rnor_6.01688,344,652 - 88,344,865NCBIRnor6.0
Rnor_5.01687,741,383 - 87,741,596UniSTSRnor5.0
Rnor_5.0X37,653,940 - 37,654,153UniSTSRnor5.0
RGSC_v3.4X55,912,903 - 55,913,116UniSTSRGSC3.4
RGSC_v3.41687,958,417 - 87,958,630UniSTSRGSC3.4
Celera1680,231,365 - 80,231,578UniSTS
CeleraX35,386,468 - 35,386,681UniSTS
Cytogenetic MapXq21UniSTS
RH141520  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21682,512,559 - 82,512,740 (-)MAPPER
mRatBN7.21682,512,559 - 82,512,740 (+)MAPPER
mRatBN7.2X34,713,049 - 34,713,230 (-)MAPPER
mRatBN7.2X34,713,049 - 34,713,230 (+)MAPPER
Rnor_6.0X37,342,151 - 37,342,331NCBIRnor6.0
Rnor_6.01688,345,517 - 88,345,697NCBIRnor6.0
Rnor_5.0X37,653,097 - 37,653,277UniSTSRnor5.0
Rnor_5.01687,742,248 - 87,742,428UniSTSRnor5.0
RGSC_v3.4X55,912,060 - 55,912,240UniSTSRGSC3.4
RGSC_v3.41687,959,282 - 87,959,462UniSTSRGSC3.4
Celera1680,232,230 - 80,232,410UniSTS
CeleraX35,385,625 - 35,385,805UniSTS
RH 3.4 MapX503.51UniSTS
Cytogenetic Map16q12.5UniSTS
Cytogenetic MapXq21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X144092703Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X428214049282140Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X595407850954078Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X15688119127888215Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1815335263153352Rat
1598873Memor2Memory QTL 22.5exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)X2159262344320739Rat
2290375Gluco34Glucose level QTL 342.75blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X2159262344468300Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:339
Count of miRNA genes:219
Interacting mature miRNAs:257
Transcripts:ENSRNOT00000038352
Prediction methods:Miranda, Pita
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 34 11 8
Low 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000038352   ⟹   ENSRNOP00000030279
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX37,329,779 - 37,343,410 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088802   ⟹   ENSRNOP00000069789
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX37,329,817 - 37,341,807 (+)Ensembl
RefSeq Acc Id: NM_001004072   ⟹   NP_001004072
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X34,700,481 - 34,714,309 (+)NCBI
Rnor_6.0X37,329,779 - 37,343,410 (+)NCBI
Rnor_5.0X37,640,725 - 37,654,356 (+)NCBI
RGSC_v3.4X55,899,491 - 55,913,319 (+)RGD
CeleraX35,373,056 - 35,386,884 (+)RGD
Sequence:
RefSeq Acc Id: XM_039099538   ⟹   XP_038955466
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X34,704,093 - 34,714,297 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001004072 (Get FASTA)   NCBI Sequence Viewer  
  XP_038955466 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH98897 (Get FASTA)   NCBI Sequence Viewer  
  EDL96148 (Get FASTA)   NCBI Sequence Viewer  
  P26284 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001004072   ⟸   NM_001004072
- Peptide Label: precursor
- UniProtKB: Q4FZZ4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000030279   ⟸   ENSRNOT00000038352
RefSeq Acc Id: ENSRNOP00000069789   ⟸   ENSRNOT00000088802
RefSeq Acc Id: XP_038955466   ⟸   XM_039099538
- Peptide Label: isoform X1
Protein Domains
E1_dh

Transcriptome

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

Promoters
RGD ID:13701816
Promoter ID:EPDNEW_R12333
Type:initiation region
Name:Pdha1_1
Description:pyruvate dehydrogenase E1 alpha 1 subunit
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_6.0X37,329,767 - 37,329,827EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3286 AgrOrtholog
Ensembl Genes ENSRNOG00000025383 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000030279 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000069789 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000038352 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000088802 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7103543 IMAGE-MGC_LOAD
  IMAGE:7109678 IMAGE-MGC_LOAD
InterPro DH_E1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pyrv_DH_E1_asu_subgrp-y UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  THDP-binding UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29554 UniProtKB/TrEMBL
MGC_CLONE MGC:114215 IMAGE-MGC_LOAD
  MGC:94854 IMAGE-MGC_LOAD
NCBI Gene 29554 ENTREZGENE
Pfam E1_dh UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pdha1 PhenoGen
Superfamily-SCOP SSF52518 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs PDH_E1_alph_y UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JW90_RAT UniProtKB/TrEMBL
  F7FKI5_RAT UniProtKB/TrEMBL
  ODPA_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q4FZZ4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-12-06 Pdha1  pyruvate dehydrogenase E1 subunit alpha 1  Pdha1  pyruvate dehydrogenase E1 alpha 1 subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-08-23 Pdha1  pyruvate dehydrogenase E1 alpha 1 subunit  Pdha1  pyruvate dehydrogenase alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-06-20 Pdha1  pyruvate dehydrogenase alpha 1  Pdha1  pyruvate dehydrogenase (lipoamide) alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-02-26 Pdha1  pyruvate dehydrogenase (lipoamide) alpha 1  Pdha1  pyruvate dehydrogenase E1 alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Pdha1  Pyruvate dehydrogenase (lipoamide) alpha 1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease mutation of the human homolog is detected in patients with pyruvate dehydrogenase complex deficiency disease 731230