Pgd (phosphogluconate dehydrogenase) - Rat Genome Database

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Gene: Pgd (phosphogluconate dehydrogenase) Rattus norvegicus
Analyze
Symbol: Pgd
Name: phosphogluconate dehydrogenase
RGD ID: 1583832
Description: Enables several functions, including NADP binding activity; carboxylic acid binding activity; and phosphogluconate dehydrogenase (decarboxylating) activity. Involved in D-gluconate metabolic process and pentose-phosphate shunt, oxidative branch. Located in intracellular membrane-bounded organelle. Orthologous to human PGD (phosphogluconate dehydrogenase); PARTICIPATES IN pentose phosphate pathway; pentose phosphate pathway - oxidative phase; ribose 5-phosphate isomerase deficiency pathway; INTERACTS WITH (R)-noradrenaline; 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 6-phosphogluconate dehydrogenase, decarboxylating; 6-phosphogluconate dehydrogenase, decarboxylating-like; Cc2-27; LOC100360180; Pgd_mapped; phosphogluconate dehydrogenase (mapped)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25159,582,746 - 159,598,945 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl5159,561,271 - 159,742,778 (-)Ensembl
Rnor_6.05165,966,128 - 165,982,327 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05169,614,705 - 169,630,921 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45166,221,292 - 166,237,485 (-)NCBIRGSC3.4rn4RGSC3.4
Celera5157,853,711 - 157,869,910 (-)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(E)-cinnamyl alcohol  (ISO)
(R)-noradrenaline  (EXP)
(S)-naringenin  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-phenylenediamine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-hydroxypropanoic acid  (ISO)
2-tert-butylhydroquinone  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-methylphenazinium methyl sulfate  (ISO)
7,12-dimethyltetraphene  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-hexylcinnamaldehyde  (ISO)
amikacin  (EXP)
ampicillin  (EXP)
aristolochic acid  (ISO)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
astaxanthin  (EXP)
Bandrowski's base  (ISO)
benzo[a]pyrene  (ISO)
benzoic acid  (ISO)
benzylpenicillin  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A5  (ISO)
buspirone  (EXP)
cadmium atom  (EXP)
cadmium sulfate  (ISO)
carbon nanotube  (ISO)
carvedilol  (EXP)
cefepime  (EXP)
cefotaxime  (EXP)
chloramphenicol  (EXP)
chloroprene  (ISO)
choline  (ISO)
chrysin  (ISO)
cinnamyl alcohol  (ISO)
ciprofloxacin  (EXP)
cis-caffeic acid  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
clofibrate  (EXP)
cobalt dichloride  (ISO)
curcumin  (EXP)
cyclosporin A  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
diethyl maleate  (EXP)
digoxin  (EXP)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
diquat  (ISO)
disulfiram  (ISO)
dopamine  (EXP)
ellagic acid  (ISO)
eugenol  (ISO)
ferulic acid  (ISO)
flutamide  (EXP)
folic acid  (ISO)
fulvestrant  (ISO)
furosemide  (EXP)
gamma-hexachlorocyclohexane  (EXP)
gentamycin  (EXP)
hexane  (ISO)
iron trichloride  (EXP)
isepamicin  (EXP)
isoeugenol  (ISO)
isoflavones  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
lead diacetate  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
leflunomide  (EXP)
menadione  (ISO)
methyl salicylate  (ISO)
methylene blue  (ISO)
methylmercury chloride  (ISO)
microcystin-LR  (ISO)
N-acetyl-L-cysteine  (EXP)
N-methylformamide  (ISO)
N-nitrosodiethylamine  (EXP)
NADP zwitterion  (EXP)
NADP(+)  (EXP)
netilmycin  (EXP)
nickel sulfate  (ISO)
ofloxacin  (EXP)
paracetamol  (ISO)
paraquat  (EXP,ISO)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
phosgene  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
propan-2-ol  (ISO)
propiconazole  (ISO)
pyrroles  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sinapic acid  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dodecyl sulfate  (ISO)
sulforaphane  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
teicoplanin  (EXP)
temozolomide  (ISO)
tetrachloromethane  (EXP,ISO)
trans-caffeic acid  (ISO)
trans-isoeugenol  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
uranium atom  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
zearalenone  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Purification of rat kidney glucose 6-phosphate dehydrogenase, 6-phosphogluconate dehydrogenase, and glutathione reductase enzymes using 2',5'-ADP Sepharose 4B affinity in a single chromatography step. Adem S and Ciftci M, Protein Expr Purif. 2012 Jan;81(1):1-4. doi: 10.1016/j.pep.2011.08.031. Epub 2011 Sep 10.
2. The cellular fate of glucose and its relevance in type 2 diabetes. Bouche C, etal., Endocr Rev. 2004 Oct;25(5):807-30.
3. The pentose phosphate pathway in the endoplasmic reticulum. Bublitz C and Steavenson S, J Biol Chem. 1988 Sep 15;263(26):12849-53.
4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Hexose-6-phosphate and 6-phosphogluconate dehydrogenases of rat liver microsomes. Involvement in NADPH and carbon dioxide generation in the luminal space of microsomal vesicles. Hino Y and Minakami S, J Biochem (Tokyo). 1982 Aug;92(2):547-57.
6. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Effect of Anabolic Steroid Nandrolone Decanoate on the Properties of Certain Enzymes in the Heart, Liver, and Muscle of Rats, and their Effect on Rats' Cardiac Electrophysiology. Tylicki A, etal., Horm Metab Res. 2007 Apr;39(4):268-72.
9. Significance of the 5-phosphoribosyl-1-pyrophosphate pool for cardiac purine and pyrimidine nucleotide synthesis: studies with ribose, adenine, inosine, and orotic acid in rats. Zimmer HG Cardiovasc Drugs Ther. 1998 Sep;12 Suppl 2:179-87.
Additional References at PubMed
PMID:204065   PMID:1235912   PMID:3858849   PMID:7323947   PMID:8491670   PMID:9920387   PMID:12479874   PMID:15057822   PMID:15155459   PMID:16284727   PMID:19056867   PMID:19343716  
PMID:20458337   PMID:21630459   PMID:23376485   PMID:23533145   PMID:25228019  


Genomics

Comparative Map Data
Pgd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25159,582,746 - 159,598,945 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl5159,561,271 - 159,742,778 (-)Ensembl
Rnor_6.05165,966,128 - 165,982,327 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05169,614,705 - 169,630,921 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45166,221,292 - 166,237,485 (-)NCBIRGSC3.4rn4RGSC3.4
Celera5157,853,711 - 157,869,910 (-)NCBICelera
Cytogenetic Map5q36NCBI
PGD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38110,399,064 - 10,420,511 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl110,398,592 - 10,420,511 (+)EnsemblGRCh38hg38GRCh38
GRCh37110,459,121 - 10,480,568 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36110,381,672 - 10,402,788 (+)NCBINCBI36hg18NCBI36
Build 34110,393,350 - 10,414,467NCBI
Celera19,570,477 - 9,591,593 (+)NCBI
Cytogenetic Map1p36.22NCBI
HuRef19,612,776 - 9,633,839 (+)NCBIHuRef
CHM1_1110,447,954 - 10,469,073 (+)NCBICHM1_1
T2T-CHM13v2.019,942,673 - 9,964,125 (+)NCBI
Pgd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394149,234,448 - 149,251,162 (-)NCBIGRCm39mm39
GRCm39 Ensembl4149,234,448 - 149,251,228 (-)Ensembl
GRCm384149,149,991 - 149,166,705 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4149,149,991 - 149,166,771 (-)EnsemblGRCm38mm10GRCm38
MGSCv374148,524,094 - 148,540,816 (-)NCBIGRCm37mm9NCBIm37
MGSCv364147,993,785 - 148,010,507 (-)NCBImm8
Celera4151,416,090 - 151,432,815 (-)NCBICelera
Cytogenetic Map4E2NCBI
cM Map478.96NCBI
Pgd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554863,343,863 - 3,357,066 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554863,344,705 - 3,356,906 (-)NCBIChiLan1.0ChiLan1.0
PGD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1110,385,022 - 10,408,078 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl110,385,087 - 10,408,078 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v019,159,412 - 9,180,740 (+)NCBIMhudiblu_PPA_v0panPan3
PGD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1285,393,526 - 85,408,714 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl285,393,819 - 85,408,272 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha281,995,019 - 82,010,228 (-)NCBI
ROS_Cfam_1.0286,128,551 - 86,143,976 (-)NCBI
UMICH_Zoey_3.1282,875,909 - 82,891,117 (-)NCBI
UNSW_CanFamBas_1.0283,878,401 - 83,893,609 (-)NCBI
UU_Cfam_GSD_1.0284,941,328 - 84,956,541 (-)NCBI
Pgd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505833,749,594 - 33,766,445 (+)NCBI
SpeTri2.0NW_0049366234,234,869 - 4,251,690 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PGD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl670,675,815 - 70,692,679 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1670,675,751 - 70,692,697 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2664,608,578 - 64,625,512 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap6q22-q25NCBI
PGD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120121,359,854 - 121,380,934 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605425,275,267 - 25,297,177 (-)NCBIVero_WHO_p1.0
Pgd
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248182,261,940 - 2,274,723 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248182,261,658 - 2,274,878 (-)NCBIHetGla_female_1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5143608201161165651Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5144377876161317411Rat
1298090Bp155Blood pressure QTL 1553.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)5151006154161165494Rat
1354631Swd2Spike wave discharge measurement QTL 23.640.0002brain electrophysiology trait (VT:0010557)brain total spike-and-wave discharge duration (CMO:0001740)5151113452164465185Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5151113452166875058Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5154828214166875058Rat


Expression


Sequence


Reference Sequences
RefSeq Acc Id: NM_001305435   ⟹   NP_001292364
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25159,582,746 - 159,598,945 (-)NCBI
Rnor_6.05165,966,128 - 165,982,327 (-)NCBI
Celera5157,853,711 - 157,869,910 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039109101   ⟹   XP_038965029
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25159,582,752 - 159,598,915 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001292364 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965029 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL81153 (Get FASTA)   NCBI Sequence Viewer  
  P85968 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001292364   ⟸   NM_001305435
- UniProtKB: P85968 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_038965029   ⟸   XM_039109101
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P85968-F1-model_v2 AlphaFold P85968 1-483 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
BUF/N (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/Stm (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
FXLE16/Stm (2020)
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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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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
GK/FarMcwi (2019)
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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
HXB10/IpcvMcwi (2019)
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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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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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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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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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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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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
LEW/Crl (2019)
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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
LEXF10A/StmMcwi (2020)
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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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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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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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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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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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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/MavRrrcAek (2020)
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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/MavRrrcAek (2020)
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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/MavRrrcAek (2020)
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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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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/NRrrcMcwi (2019)
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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
MR/N (2020)
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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
MWF/Hsd (2019)
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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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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
SHR/OlalpcvMcwi (2019)
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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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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
SR/JrHsd (2020)
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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
SS/JrHsdMcwi (2019)
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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
WAG/RijCrl (2020)
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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/N (2020)
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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/NCrl (2019)
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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
WN/N (2020)
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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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583832 AgrOrtholog
BioCyc Gene G2FUF-39141 BioCyc
BioCyc Pathway OXIDATIVEPENT-PWY [pentose phosphate pathway (oxidative branch) I] BioCyc
Ensembl Genes ENSRNOG00000057626 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000074305.2 UniProtKB/TrEMBL
  ENSRNOP00000075214.2 UniProtKB/TrEMBL
  ENSRNOP00000077156.1 UniProtKB/TrEMBL
  ENSRNOP00000082532 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000088342.1 UniProtKB/TrEMBL
  ENSRNOP00000094551.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000077784.2 UniProtKB/TrEMBL
  ENSRNOT00000078830.2 UniProtKB/TrEMBL
  ENSRNOT00000086226.2 UniProtKB/TrEMBL
  ENSRNOT00000104782 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000105558.1 UniProtKB/TrEMBL
  ENSRNOT00000117986.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1040.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.10.20.10 UniProtKB/TrEMBL
  2.30.29.30 UniProtKB/TrEMBL
  3.40.850.10 UniProtKB/TrEMBL
InterPro 6-PGluconate_DH-like_C_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  6PGD_dom2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  6PGDH_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  6PGDH_Gnd/GntZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  6PGDH_NADP-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  6PGdom_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CENP-S/Mhf1 UniProtKB/TrEMBL
  FHA_dom UniProtKB/TrEMBL
  Histone-fold UniProtKB/TrEMBL
  Kinesin-like UniProtKB/TrEMBL
  Kinesin-like_fam UniProtKB/TrEMBL
  Kinesin-like_KIF1-typ UniProtKB/TrEMBL
  Kinesin_assoc UniProtKB/TrEMBL
  Kinesin_motor_CS UniProtKB/TrEMBL
  Kinesin_motor_dom UniProtKB/TrEMBL
  Kinesin_motor_dom_sf UniProtKB/TrEMBL
  NAD(P)-bd_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  Pgluconate_DH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH-like_dom_sf UniProtKB/TrEMBL
  PH_domain UniProtKB/TrEMBL
  SMAD_FHA_dom_sf UniProtKB/TrEMBL
KEGG Report rno:100360180 UniProtKB/Swiss-Prot
NCBI Gene Pgd ENTREZGENE
PANTHER PTHR11811 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR24115 UniProtKB/TrEMBL
Pfam 6PGD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CENP-S UniProtKB/TrEMBL
  DUF3694 UniProtKB/TrEMBL
  FHA UniProtKB/TrEMBL
  KIF1B UniProtKB/TrEMBL
  Kinesin UniProtKB/TrEMBL
  Kinesin_assoc UniProtKB/TrEMBL
  NAD_binding_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00169 UniProtKB/TrEMBL
PhenoGen Pgd PhenoGen
PIRSF 6PGD UniProtKB/Swiss-Prot
PRINTS 6PGDHDRGNASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KINESINHEAVY UniProtKB/TrEMBL
PROSITE 6PGD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FHA_DOMAIN UniProtKB/TrEMBL
  KINESIN_MOTOR_1 UniProtKB/TrEMBL
  KINESIN_MOTOR_2 UniProtKB/TrEMBL
  PH_DOMAIN UniProtKB/TrEMBL
SMART 6PGD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FHA UniProtKB/TrEMBL
  KISc UniProtKB/TrEMBL
  SM00233 UniProtKB/TrEMBL
Superfamily-SCOP SSF47113 UniProtKB/TrEMBL
  SSF48179 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49879 UniProtKB/TrEMBL
  SSF51735 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
TIGRFAMs gnd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt 6PGD_RAT UniProtKB/Swiss-Prot
  A0A0G2K7Q8_RAT UniProtKB/TrEMBL
  A0A0G2KA12_RAT UniProtKB/TrEMBL
  A0A8I5ZK86_RAT UniProtKB/TrEMBL
  A0A8I6A9T5_RAT UniProtKB/TrEMBL
  A0A8I6AL17_RAT UniProtKB/TrEMBL
  P85968 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-07-10 Pgd  phosphogluconate dehydrogenase  LOC100360180  6-phosphogluconate dehydrogenase, decarboxylating-like  Data Merged 737654 APPROVED
2010-05-06 LOC100360180  6-phosphogluconate dehydrogenase, decarboxylating-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2007-04-13   phosphogluconate dehydrogenase  Pgd  phosphogluconate dehydrogenase (mapped)  Name updated 737654 APPROVED
2007-04-11 Pgd  phosphogluconate dehydrogenase (mapped)  Pgd_mapped  phosphogluconate dehydrogenase (mapped)  Data Merged 737654 APPROVED
2006-11-19 Pgd  phosphogluconate dehydrogenase (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Pgd_mapped  phosphogluconate dehydrogenase (mapped)      Symbol and Name updated 1556543 APPROVED
2003-04-09 Pgd  phosphogluconate dehydrogenase    Phosphogluconate dehydrogenase  Name updated 629478 APPROVED
2002-06-10 Pgd  Phosphogluconate dehydrogenase      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_regulation activity decreases with age in adipose tissue and kidney cortex but not skeletal muscle, heart or brain 1334488
gene_regulation activity increased by oestradiol in females 1334488