Prdx2 (peroxiredoxin 2) - Rat Genome Database

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Gene: Prdx2 (peroxiredoxin 2) Rattus norvegicus
Analyze
Symbol: Prdx2
Name: peroxiredoxin 2
RGD ID: 3838
Description: Predicted to have thioredoxin peroxidase activity. Involved in negative regulation of neuron apoptotic process and response to oxidative stress. Localizes to cytosol. Orthologous to human PRDX2 (peroxiredoxin 2); INTERACTS WITH 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 2,4-dibromophenyl 2,4,5-tribromophenyl ether; 2-methoxyethanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: peroxiredoxin-2; Tdpx1; thiol-specific antioxidant protein; thioredoxin peroxidase 1; thioredoxin-dependent peroxide reductase 1; thioredoxin-dependent peroxiredoxin 2; TSA
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
mRatBN7.21923,180,927 - 23,186,217 (-)NCBI
Rnor_6.0 Ensembl1926,084,903 - 26,090,094 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01926,084,816 - 26,090,095 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01937,060,439 - 37,065,718 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41924,836,199 - 24,841,390 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11924,841,024 - 24,846,203 (-)NCBI
Celera1922,738,487 - 22,743,678 (-)NCBICelera
Cytogenetic Map19q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
1H-pyrazole  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (EXP)
2-butoxyethanol  (ISO)
2-methoxyethanol  (EXP)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
amphibole asbestos  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
ATP  (EXP)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
cadmium atom  (EXP)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
calycosin  (ISO)
carbon nanotube  (ISO)
cerium trichloride  (ISO)
ceruletide  (EXP)
cisplatin  (ISO)
clobetasol  (ISO)
clofibrate  (EXP)
clotrimazole  (ISO)
cocaine  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
CU-O LINKAGE  (ISO)
cumene hydroperoxide  (ISO)
cyclosporin A  (ISO)
cyfluthrin  (ISO)
cypermethrin  (ISO)
deoxycholic acid  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dibutyl phthalate  (ISO)
dichlorine  (EXP)
dicrotophos  (ISO)
diethyldithiocarbamic acid  (EXP)
dimethylarsinic acid  (EXP)
dioxygen  (ISO)
doxorubicin  (EXP,ISO)
elemental selenium  (EXP)
enzyme inhibitor  (ISO)
ethanol  (EXP)
flavonoids  (EXP)
flutamide  (EXP)
formaldehyde  (ISO)
genistein  (EXP)
glutathione  (ISO)
glyphosate  (ISO)
graphite  (ISO)
herbicide  (ISO)
hexachlorobenzene  (EXP)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP,ISO)
ibuprofen  (ISO)
indometacin  (ISO)
isotretinoin  (ISO)
kojic acid  (EXP)
L-ethionine  (EXP)
lead diacetate  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
mancozeb  (ISO)
mercury atom  (EXP)
mercury(0)  (EXP)
metformin  (ISO)
methamphetamine  (EXP,ISO)
methapyrilene  (EXP)
methotrexate  (ISO)
methoxyacetic acid  (EXP)
microcystin  (EXP)
minocycline  (ISO)
mitoxantrone  (ISO)
mono(2-ethylhexyl) phthalate  (EXP)
monosodium L-glutamate  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-nitrosodiethylamine  (EXP)
N-nitrosomorpholine  (EXP)
naphthalene  (ISO)
nickel dichloride  (EXP)
ochratoxin A  (EXP,ISO)
omeprazole  (EXP)
ozone  (EXP)
p-toluidine  (EXP)
paclitaxel  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
perfluorododecanoic acid  (EXP)
permethrin  (EXP)
PhIP  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
picloram  (ISO)
pirinixic acid  (EXP)
Propiverine  (EXP)
Pyridostigmine bromide  (EXP)
quartz  (ISO)
quercetin  (ISO)
raloxifene  (EXP)
resveratrol  (ISO)
rotenone  (EXP)
S-allylcysteine  (ISO)
SB 203580  (ISO)
selenium atom  (EXP)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP)
sodium dodecyl sulfate  (ISO)
sodium fluoride  (ISO)
streptozocin  (ISO)
sunitinib  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP,ISO)
Tributyltin oxide  (EXP)
trichlopyr  (ISO)
trichloroethene  (EXP)
troglitazone  (ISO)
uranium atom  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
zinc atom  (EXP)
zinc protoporphyrin  (ISO)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytosol  (IBA,IDA)

Molecular Function

References

Additional References at PubMed
PMID:8144038   PMID:9115640   PMID:10514471   PMID:10751410   PMID:12688630   PMID:12943237   PMID:15259009   PMID:15489334   PMID:15902258   PMID:16178011   PMID:16290204   PMID:17325201  
PMID:17519234   PMID:17634366   PMID:18491044   PMID:18614015   PMID:19030911   PMID:19182904   PMID:19199708   PMID:20458337   PMID:20568815   PMID:20978343   PMID:21814176   PMID:22166015  
PMID:23106098   PMID:23533145   PMID:24625528   PMID:25002582   PMID:26316108   PMID:26945066   PMID:27082744   PMID:29036266   PMID:29339092   PMID:29476059   PMID:29867124   PMID:30315937  
PMID:30655626   PMID:31904090   PMID:32279622  


Genomics

Comparative Map Data
Prdx2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21923,180,927 - 23,186,217 (-)NCBI
Rnor_6.0 Ensembl1926,084,903 - 26,090,094 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01926,084,816 - 26,090,095 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01937,060,439 - 37,065,718 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41924,836,199 - 24,841,390 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11924,841,024 - 24,846,203 (-)NCBI
Celera1922,738,487 - 22,743,678 (-)NCBICelera
Cytogenetic Map19q11NCBI
PRDX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1912,796,820 - 12,801,800 (-)EnsemblGRCh38hg38GRCh38
GRCh381912,796,823 - 12,801,800 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371912,907,637 - 12,912,614 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361912,768,634 - 12,773,694 (-)NCBINCBI36hg18NCBI36
Build 341912,772,426 - 12,773,694NCBI
Celera1912,797,342 - 12,802,402 (-)NCBI
Cytogenetic Map19p13.13NCBI
HuRef1912,479,370 - 12,484,460 (-)NCBIHuRef
CHM1_11912,908,110 - 12,913,203 (-)NCBICHM1_1
Prdx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39885,696,251 - 85,701,440 (+)NCBIGRCm39mm39
GRCm39 Ensembl885,696,216 - 85,701,463 (+)Ensembl
GRCm38884,969,622 - 84,974,811 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl884,969,587 - 84,974,834 (+)EnsemblGRCm38mm10GRCm38
MGSCv37887,493,547 - 87,498,212 (+)NCBIGRCm37mm9NCBIm37
MGSCv36887,859,727 - 87,864,913 (+)NCBImm8
Celera889,264,392 - 89,268,992 (+)NCBICelera
Cytogenetic Map8C3NCBI
cM Map841.4NCBI
Prdx2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541531,880,588 - 31,884,778 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541531,880,801 - 31,884,453 (-)NCBIChiLan1.0ChiLan1.0
PRDX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11913,103,422 - 13,107,369 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1913,103,422 - 13,107,369 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01912,359,084 - 12,363,552 (-)NCBIMhudiblu_PPA_v0panPan3
PRDX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12049,352,271 - 49,356,755 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2049,352,266 - 49,356,682 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2049,226,357 - 49,230,400 (+)NCBI
ROS_Cfam_1.02049,871,142 - 49,875,184 (+)NCBI
UMICH_Zoey_3.12049,082,268 - 49,086,289 (+)NCBI
UNSW_CanFamBas_1.02049,508,565 - 49,512,576 (+)NCBI
UU_Cfam_GSD_1.02049,751,214 - 49,755,260 (+)NCBI
Prdx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118208,456,986 - 208,460,283 (+)NCBI
SpeTri2.0NW_0049366591,894,423 - 1,897,690 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRDX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl266,207,796 - 66,213,567 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1266,207,829 - 66,211,474 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2266,509,636 - 66,513,280 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PRDX2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1611,484,452 - 11,489,067 (-)NCBI
ChlSab1.1 Ensembl611,481,784 - 11,489,051 (-)Ensembl
Prdx2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624901407,240 - 410,902 (-)NCBI

Position Markers
UniSTS:234183  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21151,736,394 - 151,736,491 (+)MAPPER
Rnor_6.01162,394,027 - 162,394,123NCBIRnor6.0
Rnor_5.01168,601,156 - 168,601,252UniSTSRnor5.0
RGSC_v3.41154,660,832 - 154,660,928UniSTSRGSC3.4
Celera1149,835,862 - 149,835,958UniSTS
Cytogenetic Map1q32UniSTS
Cytogenetic Map19q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127635288Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19129558305Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19129558305Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19132379055Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19138221845Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19138221845Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19138221845Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19138221845Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19104464846044648Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19195770746957707Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19243296347217667Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19243296362275575Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)19370183548701835Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)19370183548701835Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19500757143907843Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19650676160220581Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19807254547318201Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191073992926201726Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191130392747879277Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)191529452433991703Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)191593952838798459Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191702800352538299Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191899398262275575Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191917749562275575Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)192140778762275575Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)192445572643907843Rat
61328Eae8Experimental allergic encephalomyelitis QTL 84nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)192445762737140233Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192481825762275575Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:56
Count of miRNA genes:47
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000004799
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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 10 18 12 3 12 39 8 10
Medium 3 33 45 29 16 29 8 11 35 27 31 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004799   ⟹   ENSRNOP00000004799
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1926,084,903 - 26,090,094 (+)Ensembl
RefSeq Acc Id: NM_017169   ⟹   NP_058865
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21923,180,928 - 23,186,122 (-)NCBI
Rnor_6.01926,084,903 - 26,090,094 (+)NCBI
Rnor_5.01937,060,439 - 37,065,718 (+)NCBI
RGSC_v3.41924,836,199 - 24,841,390 (-)RGD
Celera1922,738,487 - 22,743,678 (-)RGD
Sequence:
RefSeq Acc Id: XM_006255244   ⟹   XP_006255306
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21923,180,927 - 23,186,217 (-)NCBI
Rnor_6.01926,084,816 - 26,090,095 (+)NCBI
Rnor_5.01937,060,439 - 37,065,718 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_058865 (Get FASTA)   NCBI Sequence Viewer  
  XP_006255306 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA19959 (Get FASTA)   NCBI Sequence Viewer  
  AAH58481 (Get FASTA)   NCBI Sequence Viewer  
  EDL92175 (Get FASTA)   NCBI Sequence Viewer  
  P35704 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_058865   ⟸   NM_017169
- Sequence:
RefSeq Acc Id: XP_006255306   ⟸   XM_006255244
- Peptide Label: isoform X1
- UniProtKB: P35704 (UniProtKB/Swiss-Prot),   A0A0G2JSH9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004799   ⟸   ENSRNOT00000004799
Protein Domains
Thioredoxin

Transcriptome

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

Promoters
RGD ID:13701033
Promoter ID:EPDNEW_R11556
Type:initiation region
Name:Prdx2_1
Description:peroxiredoxin 2
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_6.01926,084,880 - 26,084,940EPDNEW

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)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
19 26085632 26085633 G A snv Buf/N (MCW)
19 26086994 26086995 G A snv Buf/N (MCW), WN/N (MCW), M520/N (MCW), MR/N (MCW), WKY/N (MCW), ACI/N (MCW), F344/NRrrc (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3838 AgrOrtholog
Ensembl Genes ENSRNOG00000003520 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000004799 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004799 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.40.30.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6921522 IMAGE-MGC_LOAD
InterPro AhpC/TSA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peroxiredoxin_AhpC-typ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peroxiredoxin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thioredoxin-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thioredoxin_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29338 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72863 IMAGE-MGC_LOAD
NCBI Gene 29338 ENTREZGENE
Pfam 1-cysPrx_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  AhpC-TSA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Prdx2 PhenoGen
PIRSF AHPC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE THIOREDOXIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52833 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC228632
UniProt A0A0G2JSH9 ENTREZGENE, UniProtKB/TrEMBL
  P35704 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q6PDV3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Prdx2  peroxiredoxin 2    peroxiredoxin 2   Name updated 1299863 APPROVED
2002-06-10 Prdx2  peroxiredoxin 2       Name updated 70584 APPROVED
2001-12-10 Prdx2  peroxiredoxin 2      Symbol and Name updated to reflect Human and Mouse nomenclature 69665 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_product member of AhpC/TSA family 70035