Gpd1 (glycerol-3-phosphate dehydrogenase 1) - Rat Genome Database

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Gene: Gpd1 (glycerol-3-phosphate dehydrogenase 1) Rattus norvegicus
Analyze
Symbol: Gpd1
Name: glycerol-3-phosphate dehydrogenase 1
RGD ID: 621381
Description: Exhibits NAD binding activity; glycerol-3-phosphate dehydrogenase (quinone) activity; and glycerol-3-phosphate dehydrogenase [NAD+] activity. Involved in several processes, including NADH oxidation; glycerol-3-phosphate metabolic process; and glycerolipid metabolic process. Localizes to cytosol. Orthologous to human GPD1 (glycerol-3-phosphate dehydrogenase 1); PARTICIPATES IN D-glycericacidemia pathway; electron transport chain pathway; familial lipoprotein lipase deficiency pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol; 3H-1,2-dithiole-3-thione.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: glycerol 3-phosphate dehydrogenase; glycerol-3-phosphate dehydrogenase 1 (soluble); glycerol-3-phosphate dehydrogenase [NAD(+)], cytoplasmic; glycerol-3-phosphate dehydrogenase [NAD+], cytoplasmic; GPD-C; Gpd3; GPDH; GPDH-C; MGC93453
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
mRatBN7.27130,842,526 - 130,851,530 (+)NCBI
Rnor_6.0 Ensembl7141,370,491 - 141,377,928 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07141,368,928 - 141,377,931 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X115,874,138 - 115,882,579 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47138,458,875 - 138,466,266 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17138,535,311 - 138,542,700 (+)NCBI
Celera7127,325,535 - 127,332,926 (+)NCBICelera
Cytogenetic Map7q36NCBI
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
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (ISO)
3-aminobenzoic acid  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (EXP)
all-trans-retinoic acid  (ISO)
aluminium atom  (ISO)
aluminium(0)  (ISO)
ammonium chloride  (EXP)
arsenous acid  (ISO)
benzamide  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
benzoates  (ISO)
bexarotene  (EXP)
bezafibrate  (ISO)
bicalutamide  (ISO)
bisphenol A  (EXP)
bromobenzene  (EXP)
bucladesine  (ISO)
buspirone  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
celastrol  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
clofibrate  (EXP,ISO)
cobalt dichloride  (EXP)
cyclosporin A  (ISO)
cyproconazole  (ISO)
D-glucose  (EXP)
dehydroepiandrosterone  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dichloroacetic acid  (ISO)
diclofenac  (EXP)
diuron  (EXP)
epoxiconazole  (EXP)
ethanol  (ISO)
fluoxetine  (EXP)
flutamide  (EXP)
furan  (EXP)
genistein  (ISO)
glucose  (EXP)
glycidol  (EXP)
hydrazines  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indometacin  (ISO)
ketoconazole  (ISO)
L-ascorbic acid  (EXP)
lead diacetate  (EXP)
leflunomide  (ISO)
levofloxacin  (EXP)
lithium atom  (EXP)
lithium hydride  (EXP)
methapyrilene  (ISO)
Methylazoxymethanol acetate  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
N-nitrosomorpholine  (EXP)
nefazodone  (EXP)
nickel atom  (ISO)
nicotinic acid  (ISO)
Nonylphenol  (EXP)
O-methyleugenol  (ISO)
obeticholic acid  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
perfluorododecanoic acid  (EXP)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP)
permethrin  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
picrotoxin  (EXP)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propiconazole  (ISO)
resveratrol  (EXP)
ritonavir  (ISO)
rotenone  (EXP)
sodium arsenite  (EXP,ISO)
streptozocin  (EXP)
sunitinib  (ISO)
tebuconazole  (ISO)
Tesaglitazar  (EXP)
tetracycline  (ISO)
tetraphene  (ISO)
topotecan  (EXP)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
troglitazone  (EXP)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:3027100   PMID:6105153   PMID:11147825   PMID:12093800   PMID:12432448   PMID:12477932   PMID:12759350   PMID:15156407   PMID:15489334   PMID:18614015   PMID:18952046   PMID:19056867  
PMID:20886417   PMID:22871113   PMID:23124204   PMID:23376485   PMID:26316108  


Genomics

Comparative Map Data
Gpd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27130,842,526 - 130,851,530 (+)NCBI
Rnor_6.0 Ensembl7141,370,491 - 141,377,928 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07141,368,928 - 141,377,931 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X115,874,138 - 115,882,579 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47138,458,875 - 138,466,266 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17138,535,311 - 138,542,700 (+)NCBI
Celera7127,325,535 - 127,332,926 (+)NCBICelera
Cytogenetic Map7q36NCBI
GPD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1250,103,982 - 50,111,313 (+)EnsemblGRCh38hg38GRCh38
GRCh381250,104,008 - 50,111,313 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371250,497,791 - 50,505,096 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361248,784,068 - 48,791,363 (+)NCBINCBI36hg18NCBI36
Build 341248,784,067 - 48,791,360NCBI
Celera1249,293,286 - 49,300,582 (+)NCBI
Cytogenetic Map12q13.12NCBI
HuRef1247,530,923 - 47,538,425 (+)NCBIHuRef
CHM1_11250,463,752 - 50,471,253 (+)NCBICHM1_1
Gpd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391599,615,468 - 99,622,895 (+)NCBIGRCm39mm39
GRCm39 Ensembl1599,615,396 - 99,622,886 (+)Ensembl
GRCm381599,717,587 - 99,725,014 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1599,717,515 - 99,725,005 (+)EnsemblGRCm38mm10GRCm38
MGSCv371599,548,024 - 99,555,439 (+)NCBIGRCm37mm9NCBIm37
MGSCv361599,545,627 - 99,553,042 (+)NCBImm8
Celera15101,873,405 - 101,880,780 (+)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1556.13NCBI
Gpd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955547676,342 - 690,777 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955547676,661 - 683,906 (+)NCBIChiLan1.0ChiLan1.0
GPD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11239,541,544 - 39,549,040 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1239,541,550 - 39,549,040 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01238,644,466 - 38,651,924 (-)NCBIMhudiblu_PPA_v0panPan3
GPD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1274,614,878 - 4,622,013 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl274,614,864 - 4,621,922 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2741,636,151 - 41,643,304 (+)NCBI
ROS_Cfam_1.0274,663,998 - 4,671,137 (-)NCBI
UMICH_Zoey_3.1274,628,876 - 4,636,009 (-)NCBI
UNSW_CanFamBas_1.0274,619,676 - 4,625,555 (-)NCBI
UU_Cfam_GSD_1.02742,031,192 - 42,038,340 (+)NCBI
Gpd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494565,394,517 - 65,402,211 (-)NCBI
SpeTri2.0NW_0049365127,762,325 - 7,770,007 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GPD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl516,007,448 - 16,017,825 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1516,008,179 - 16,021,676 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2516,330,841 - 16,334,498 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GPD1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11146,329,479 - 46,339,227 (+)NCBI
ChlSab1.1 Ensembl1146,331,569 - 46,337,439 (+)Ensembl
Vero_WHO_p1.0NW_023666037199,781,124 - 199,788,621 (-)NCBI
Gpd1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248162,203,731 - 2,211,006 (-)NCBI

Position Markers
RH127433  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27130,851,238 - 130,851,449 (+)MAPPER
Rnor_6.07141,377,640 - 141,377,850NCBIRnor6.0
Rnor_5.0X115,882,288 - 115,882,498UniSTSRnor5.0
RGSC_v3.47138,465,975 - 138,466,185UniSTSRGSC3.4
Celera7127,332,635 - 127,332,845UniSTS
RH 3.4 Map71078.1UniSTS
Cytogenetic Map7q36UniSTS
22.MMHAP28FLH1.seq  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27130,851,090 - 130,851,283 (+)MAPPER
Rnor_6.07141,377,492 - 141,377,684NCBIRnor6.0
Rnor_5.0X115,882,140 - 115,882,332UniSTSRnor5.0
RGSC_v3.47138,465,827 - 138,466,019UniSTSRGSC3.4
Celera7127,332,487 - 127,332,679UniSTS
Cytogenetic Map7q36UniSTS
BF399697  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27130,847,422 - 130,847,666 (+)MAPPER
Rnor_6.07141,373,825 - 141,374,068NCBIRnor6.0
Rnor_5.0X115,878,473 - 115,878,716UniSTSRnor5.0
RGSC_v3.47138,462,160 - 138,462,403UniSTSRGSC3.4
Celera7127,328,820 - 127,329,063UniSTS
RH 3.4 Map71051.11UniSTS
Cytogenetic Map7q36UniSTS
Gpd1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27130,850,541 - 130,851,498 (+)MAPPER
Rnor_6.07141,376,943 - 141,377,899NCBIRnor6.0
Rnor_5.0X115,881,591 - 115,882,547UniSTSRnor5.0
RGSC_v3.47138,465,278 - 138,466,234UniSTSRGSC3.4
Celera7127,331,938 - 127,332,894UniSTS
Cytogenetic Map7q36UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)796630946141630946Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7111519266143965591Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7121654760145729302Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7121986439143965591Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7122421276143965415Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7129412003145729302Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:697
Count of miRNA genes:287
Interacting mature miRNAs:369
Transcripts:ENSRNOT00000026199
Prediction methods:Microtar, Miranda, Pita, Pita,Targetscan, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 2 1 1
Medium 2 23 56 41 13 41 8 10 25 31 23 11 8
Low 1 20 5 49 4 18
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000087662   ⟹   ENSRNOP00000074647
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7141,370,491 - 141,377,928 (+)Ensembl
RefSeq Acc Id: NM_022215   ⟹   NP_071551
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27130,844,138 - 130,851,530 (+)NCBI
Rnor_6.07141,370,540 - 141,377,931 (+)NCBI
Rnor_5.0X115,874,138 - 115,882,579 (+)NCBI
RGSC_v3.47138,458,875 - 138,466,266 (+)RGD
Celera7127,325,535 - 127,332,926 (+)RGD
Sequence:
RefSeq Acc Id: XM_006257376   ⟹   XP_006257438
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27130,842,526 - 130,851,530 (+)NCBI
Rnor_6.07141,368,928 - 141,377,931 (+)NCBI
Rnor_5.0X115,874,138 - 115,882,579 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_071551   ⟸   NM_022215
- UniProtKB: O35077 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006257438   ⟸   XM_006257376
- Peptide Label: isoform X1
- UniProtKB: O35077 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074647   ⟸   ENSRNOT00000087662

Transcriptome

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

Promoters
RGD ID:13695651
Promoter ID:EPDNEW_R6174
Type:multiple initiation site
Name:Gpd1_1
Description:glycerol-3-phosphate dehydrogenase 1
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_6.07141,370,531 - 141,370,591EPDNEW

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)
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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)
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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:621381 AgrOrtholog
Ensembl Genes ENSRNOG00000056457 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000074647 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000087662 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.1040.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7108237 IMAGE-MGC_LOAD
InterPro 6-PGluconate_DH-like_C_sf UniProtKB/Swiss-Prot
  6PGD_dom2 UniProtKB/Swiss-Prot
  G3P_DH_NAD-dep UniProtKB/Swiss-Prot
  G3P_DH_NAD-dep_C UniProtKB/Swiss-Prot
  G3P_DH_NAD-dep_euk UniProtKB/Swiss-Prot
  G3P_DH_NAD-dep_N UniProtKB/Swiss-Prot
  NAD(P)-bd_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:60666 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93453 IMAGE-MGC_LOAD
NCBI Gene 60666 ENTREZGENE
Pfam NAD_Gly3P_dh_C UniProtKB/Swiss-Prot
  NAD_Gly3P_dh_N UniProtKB/Swiss-Prot
PhenoGen Gpd1 PhenoGen
PIRSF Glycerol-3-P_dh UniProtKB/Swiss-Prot
PRINTS GPDHDRGNASE UniProtKB/Swiss-Prot
PROSITE NAD_G3PDH UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48179 UniProtKB/Swiss-Prot
  SSF51735 UniProtKB/Swiss-Prot
TIGRFAMs glycerol3P_DH UniProtKB/Swiss-Prot
UniProt GPDA_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q5I0F4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-12 Gpd1  glycerol-3-phosphate dehydrogenase 1  Gpd1  glycerol-3-phosphate dehydrogenase 1 (soluble)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Gpd1  glycerol-3-phosphate dehydrogenase 1 (soluble)  Gpd3  glycerol 3-phosphate dehydrogenase  Symbol and Name updated 1299863 APPROVED
2002-08-07 Gpd3  glycerol 3-phosphate dehydrogenase      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_transcript contains a cAMP-response element (CRE) site at -57 that was active in the testis 704468