Ppat (phosphoribosyl pyrophosphate amidotransferase) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Ppat (phosphoribosyl pyrophosphate amidotransferase) Rattus norvegicus
Analyze
Symbol: Ppat
Name: phosphoribosyl pyrophosphate amidotransferase
RGD ID: 620237
Description: Enables amidophosphoribosyltransferase activity and identical protein binding activity. Involved in several processes, including cellular response to insulin stimulus; glutamine catabolic process; and lactation. Biomarker of hepatocellular carcinoma and renal cell carcinoma. Orthologous to human PPAT (phosphoribosyl pyrophosphate amidotransferase); PARTICIPATES IN 2-hydroxyglutaric aciduria pathway; adenine phoshoribosyltransferase deficiency pathway; adenosine monophosphate deaminase deficiency pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: amidophosphoribosyltransferase; Atase; glutamine phosphoribosylpyrophosphate amidotransferase; GPAT; MGC93251
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
mRatBN7.21431,215,741 - 31,250,144 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1431,216,165 - 31,250,144 (+)Ensembl
Rnor_6.01433,580,541 - 33,614,919 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1433,580,541 - 33,614,919 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01433,371,454 - 33,405,854 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41433,509,364 - 33,543,743 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11433,509,363 - 33,543,743 (+)NCBI
Celera1430,529,492 - 30,563,868 (+)NCBICelera
Cytogenetic Map14p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-alpha-phellandrene  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrotoluene  (EXP)
2-butoxyethanol  (ISO)
2-methylcholine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
all-trans-retinoic acid  (ISO)
alpha-phellandrene  (ISO)
ammonium chloride  (EXP)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP)
bromobenzene  (EXP)
cadmium dichloride  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
coumestrol  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibenz[a,h]anthracene  (ISO)
dioxygen  (ISO)
elemental selenium  (ISO)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
ethyl methanesulfonate  (ISO)
flavonoids  (EXP)
flutamide  (EXP)
folic acid  (ISO)
glutathione  (EXP)
ivermectin  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
nefazodone  (EXP)
oxaliplatin  (EXP)
paracetamol  (EXP,ISO)
pentachlorophenol  (ISO)
phenobarbital  (ISO)
phorone  (EXP)
pinosylvin  (ISO)
pirinixic acid  (EXP,ISO)
rotenone  (EXP)
selenium atom  (ISO)
silicon dioxide  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
thioacetamide  (EXP)
topotecan  (EXP)
trans-pinosylvin  (ISO)
trimellitic anhydride  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)

References

Additional References at PubMed
PMID:12477932   PMID:15489334  


Genomics

Comparative Map Data
Ppat
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21431,215,741 - 31,250,144 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1431,216,165 - 31,250,144 (+)Ensembl
Rnor_6.01433,580,541 - 33,614,919 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1433,580,541 - 33,614,919 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01433,371,454 - 33,405,854 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41433,509,364 - 33,543,743 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11433,509,363 - 33,543,743 (+)NCBI
Celera1430,529,492 - 30,563,868 (+)NCBICelera
Cytogenetic Map14p11NCBI
PPAT
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38456,393,362 - 56,435,615 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl456,393,362 - 56,435,615 (-)EnsemblGRCh38hg38GRCh38
GRCh37457,259,528 - 57,301,781 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36456,954,285 - 56,996,602 (-)NCBINCBI36hg18NCBI36
Build 34457,100,458 - 57,142,773NCBI
Celera454,765,911 - 54,808,216 (-)NCBI
Cytogenetic Map4q12NCBI
HuRef453,213,663 - 53,255,937 (-)NCBIHuRef
CHM1_1457,294,641 - 57,336,915 (-)NCBICHM1_1
T2T-CHM13v2.0459,881,364 - 59,923,605 (-)NCBI
Ppat
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39577,061,096 - 77,099,425 (-)NCBIGRCm39mm39
GRCm39 Ensembl577,061,096 - 77,099,425 (-)Ensembl
GRCm38576,913,249 - 76,951,578 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl576,913,249 - 76,951,578 (-)EnsemblGRCm38mm10GRCm38
MGSCv37577,342,274 - 77,380,603 (-)NCBIGRCm37mm9NCBIm37
MGSCv36577,987,920 - 78,026,353 (-)NCBImm8
Celera574,190,125 - 74,219,445 (-)NCBICelera
Cytogenetic Map5C3.3NCBI
Ppat
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544714,574,407 - 14,607,416 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544714,552,846 - 14,607,416 (+)NCBIChiLan1.0ChiLan1.0
PPAT
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1474,059,967 - 74,102,002 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl474,059,966 - 74,102,002 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0467,491,407 - 67,533,822 (+)NCBIMhudiblu_PPA_v0panPan3
PPAT
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11348,618,460 - 48,656,164 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1348,620,714 - 48,655,780 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1348,509,175 - 48,546,691 (-)NCBI
ROS_Cfam_1.01349,233,071 - 49,270,374 (-)NCBI
ROS_Cfam_1.0 Ensembl1349,207,789 - 49,270,306 (-)Ensembl
UMICH_Zoey_3.11348,904,984 - 48,942,482 (-)NCBI
UNSW_CanFamBas_1.01348,433,951 - 48,471,441 (-)NCBI
UU_Cfam_GSD_1.01349,380,077 - 49,417,387 (-)NCBI
Ppat
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528527,649,519 - 27,693,748 (+)NCBI
SpeTri2.0NW_00493648218,606,124 - 18,648,989 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPAT
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl855,652,201 - 55,701,077 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1855,652,194 - 55,701,077 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2857,820,418 - 57,896,880 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PPAT
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1712,201,434 - 12,242,418 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl712,191,784 - 12,243,488 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606612,869,154 - 12,912,322 (+)NCBIVero_WHO_p1.0
Ppat
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476112,980,513 - 13,019,011 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462476112,980,508 - 13,017,818 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH141568  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21431,249,660 - 31,249,860 (+)MAPPERmRatBN7.2
Rnor_6.01433,614,458 - 33,614,657NCBIRnor6.0
Rnor_5.01433,405,371 - 33,405,570UniSTSRnor5.0
RGSC_v3.41433,543,282 - 33,543,481UniSTSRGSC3.4
Celera1430,563,407 - 30,563,606UniSTS
RH 3.4 Map14382.98UniSTS
Cytogenetic Map14p11UniSTS
PMC312758P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21431,216,183 - 31,216,360 (+)MAPPERmRatBN7.2
Rnor_6.01433,580,984 - 33,581,160NCBIRnor6.0
Rnor_5.01433,371,897 - 33,372,073UniSTSRnor5.0
RGSC_v3.41433,509,807 - 33,509,983UniSTSRGSC3.4
Celera1430,529,935 - 30,530,111UniSTS
Cytogenetic Map14p11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
71117Niddm17Non-insulin dependent diabetes mellitus QTL 172.35blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)141759376142336881Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141762256142337007Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141863134542337007Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)141983694464836944Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
2324617Coatc2Coat color QTL 20.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)143076702539153750Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1313
Count of miRNA genes:350
Interacting mature miRNAs:483
Transcripts:ENSRNOT00000002905
Prediction methods:Microtar, Miranda, 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
Medium 3 43 57 41 19 41 8 10 74 35 35 11 8
Low 1 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002905   ⟹   ENSRNOP00000002905
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1431,216,165 - 31,250,144 (+)Ensembl
Rnor_6.0 Ensembl1433,580,541 - 33,614,919 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000100016   ⟹   ENSRNOP00000087004
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1431,216,165 - 31,250,144 (+)Ensembl
RefSeq Acc Id: NM_057198   ⟹   NP_476546
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21431,215,741 - 31,250,122 (+)NCBI
Rnor_6.01433,580,541 - 33,614,919 (+)NCBI
Rnor_5.01433,371,454 - 33,405,854 (+)NCBI
RGSC_v3.41433,509,364 - 33,543,743 (+)RGD
Celera1430,529,492 - 30,563,868 (+)RGD
Sequence:
RefSeq Acc Id: XM_039091566   ⟹   XP_038947494
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21431,216,234 - 31,250,144 (+)NCBI
RefSeq Acc Id: XM_039091567   ⟹   XP_038947495
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21431,232,734 - 31,250,144 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_476546   ⟸   NM_057198
- UniProtKB: P35433 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002905   ⟸   ENSRNOT00000002905
RefSeq Acc Id: XP_038947494   ⟸   XM_039091566
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947495   ⟸   XM_039091567
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000087004   ⟸   ENSRNOT00000100016
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P35433-F1-model_v2 AlphaFold P35433 1-517 view protein structure

Transcriptome

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

Promoters
RGD ID:13699271
Promoter ID:EPDNEW_R9796
Type:single initiation site
Name:Ppat_1
Description:phosphoribosyl pyrophosphate amidotransferase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R9798  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01433,580,527 - 33,580,587EPDNEW
RGD ID:13699273
Promoter ID:EPDNEW_R9798
Type:initiation region
Name:Ppat_2
Description:phosphoribosyl pyrophosphate amidotransferase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R9796  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01433,580,995 - 33,581,055EPDNEW

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)
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
FXLE18/Stm (2020)
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
GK/FarMcwi (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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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
LE/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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (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
LEXF10A/StmMcwi (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
LEXF11/Stm (2020)
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
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)
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
LEXF3/Stm (2020)
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
LEXF4/Stm (2020)
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
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
M520/NRrrcMcwi (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
MR/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
MWF/Hsd (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
PVG/Seac (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
SHR/OlalpcvMcwi (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
SHRSP/A3NCrl (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
SR/JrHsd (2020)
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
SS/JrHsdMcwi (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
WAG/RijCrl (2020)
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
WKY/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
WKY/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
WN/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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
14 33584692 33584693 A T snv COP/CrCrl (MCW & UW), SHR/OlalpcvMcwi (2019), Buf/N (MCW), M520/N (MCW), WKY/N (MCW), WN/N (MCW), BBDP/Wor (RGD), F344/NCrl (RGD), LEW/Crl (RGD), LEW/NCrlBR (RGD), MHS/Gib (RGD), MNS/Gib (RGD), SHRSP/Gcrc (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD), BUF/N (2020), F344/DuCrl (2019), F344/Stm (2019), FXLE18/Stm (2020), HXB20/IpcvMcwi (2020), LEXF3/Stm (2020), LEXF4/Stm (2020), M520/N (2020), PVG/Seac (2019), SS/JrHsdMcwi (2019), WKY/NCrl (2019), WKY/N (2020), WN/N (2020), WAG/RijCrl (2020), CDR, FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), F344/NRrrc (MCW), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), GK/Ox (RGD), LL/MavRrrc (RGD), SHR/NHsd (RGD), WAG/Rij (RGD), BXH3/CubMcwi (2020), F344/NCrl (2019), F344/N (2020), FHH/EurMcwi (2019), FXLE16/Stm (2020), GK/FarMcwi (2019), HXB2/IpcvMcwi (2019), HXB31/IpcvMcwi (2019), LEW/Crl (2019), LEXF1A/Stm (2019), LEXF2B/Stm (2019), LL/MavRrrcAek (2020), LEXF10A/StmMcwi (2020), M520/NRrrcMcwi (2019), SHRSP/A3NCrl (2019), SS/JrHsdMcwi (MCW)
14 33587989 33587990 T G snv CDR, ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), FHH/EurMcwi (MCW), SBN/Ygl (MCW), SS/JrHsdMcwi (MCW), ACI/N (MCW), Buf/N (MCW), F344/NRrrc (MCW), M520/N (MCW), WKY/N (MCW), WN/N (MCW), ACI/EurMcwi (RGD), F344/NCrl (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), GK/Ox (RGD), LEW/Crl (RGD), LEW/NCrlBR (RGD), MHS/Gib (RGD), MNS/Gib (RGD), SBH/Ygl (RGD), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD), WKY/NHsd (RGD), ACI/EurMcwi (2019), ACI/N (2020), BUF/N (2020), BXH3/CubMcwi (2020), F344/DuCrl (2019), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), HXB20/IpcvMcwi (2020), HXB2/IpcvMcwi (2019), HXB31/IpcvMcwi (2019), LEXF1A/Stm (2019), LEXF2B/Stm (2019), LEXF3/Stm (2020), LEXF4/Stm (2020), LL/MavRrrcAek (2020), LEXF10A/StmMcwi (2020), M520/NRrrcMcwi (2019), M520/N (2020), MWF/Hsd (2019), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SS/JrHsdMcwi (2019), WAG/RijCrl (2020), WKY/NCrl (2019), WKY/N (2020), WN/N (2020), SR/JrHsd (2020), CDS, FHL/EurMcwi (MCW), GH/OmrMcwi (MCW), SBH/Ygl (MCW), SR/JrHsd (MCW), MR/N (MCW), LH/MavRrrc (RGD), LN/MavRrrc (RGD), SBN/Ygl (RGD), SR/JrHsd (RGD), WAG/Rij (RGD), LEW/Crl (2019), LH/MavRrrcAek (2020), LN/MavRrrcAek (2020)
14 33597173 33597174 A G snv CDS, LN/MavRrrc (RGD), GH/OmrMcwi (MCW), SBH/Ygl (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), ACI/N (MCW), MR/N (MCW), ACI/EurMcwi (RGD), LH/MavRrrc (RGD), SBH/Ygl (RGD), SBN/Ygl (RGD), SR/JrHsd (RGD), ACI/EurMcwi (2019), ACI/N (2020), LH/MavRrrcAek (2020), LN/MavRrrcAek (2020), MWF/Hsd (2019), SR/JrHsd (2020), ACI/EurMcwi (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
14 33372027 33372028 A G snv NIG-III/Hok (KyushuU)
14 33375605 33375606 A T snv SS/JrHsdMcwi (KNAW), LE/OrlBarth (UDEL), SDLEF7/Barth (UDEL), WKY/NHsd (KNAW), WKY/NCrl (KNAW), WKY/N (KNAW), WKY/Gcrc (KNAW), F344/NRrrc (Illumina) (KNAW), SHRSP/Gcrc (KNAW), SHR/OlaIpcvPrin (KNAW), SHR/OlaIpcv (KNAW), SHR/NHsd (KNAW), SHR/NCrlPrin (KNAW), MNS/Gib (KNAW), M520/N (KNAW), LEW/NCrl (KNAW), LEW/Crl (KNAW), COP/CrCrl (MCW & UW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SS/JrHsdMcwi (MCW), WN/N (KNAW), LL/MavRrrc (KNAW), MHS/Gib (KNAW), SS/Jr (KNAW), Crl:SD (UDEL), WAG/Rij (KNAW), BBDP/WorN (KNAW), BUF/N (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), GK/Ox (KNAW)
14 33388086 33388087 A G snv ACI/EurMcwi (MCW), GH/OmrMcwi (MCW), DOB/Oda (KyushuU), BDIX/NemOda (KyushuU), Crl:SD (UDEL), SBN/Ygl (KNAW), SBH/Ygl (KNAW), ACI/EurMcwi (KNAW), ACI/N (KNAW), SR/JrHsd (KNAW), MR/N (KNAW), LN/MavRrrc (KNAW), LH/MavRrrc (KNAW), SR/JrHsd (MCW), SBN/Ygl (MCW), SBH/Ygl (MCW), BDIX.Cg-Tal/NemOda (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620237 AgrOrtholog
BioCyc Gene G2FUF-15963 BioCyc
Ensembl Genes ENSRNOG00000002128 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000002905 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000087004 ENTREZGENE
Ensembl Transcript ENSRNOT00000002905 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000100016 ENTREZGENE
Gene3D-CATH 3.40.50.2020 UniProtKB/Swiss-Prot
  3.60.20.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7189259 IMAGE-MGC_LOAD
InterPro GATase_2_dom UniProtKB/Swiss-Prot
  Ntn_hydrolases_N UniProtKB/Swiss-Prot
  PRibTrfase_dom UniProtKB/Swiss-Prot
  PRTase-like UniProtKB/Swiss-Prot
  PurF UniProtKB/Swiss-Prot
  PurF_N UniProtKB/Swiss-Prot
KEGG Report rno:117544 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93251 IMAGE-MGC_LOAD
NCBI Gene 117544 ENTREZGENE
PharmGKB PPAT RGD
PhenoGen Ppat PhenoGen
PIRSF Amd_phspho_trans UniProtKB/Swiss-Prot
PROSITE GATASE_TYPE_2 UniProtKB/Swiss-Prot
  PUR_PYR_PR_TRANSFER UniProtKB/Swiss-Prot
Superfamily-SCOP SSF53271 UniProtKB/Swiss-Prot
  SSF56235 UniProtKB/Swiss-Prot
TIGRFAMs purF UniProtKB/Swiss-Prot
UniProt P35433 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Ppat  phosphoribosyl pyrophosphate amidotransferase      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Ppat  phosphoribosyl pyrophosphate amidotransferase      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression ubiquitously expressed; enriched in brain, heart, liver, and stomach 633710
gene_protein 517 amino acids; 57.4 kDa 633710