Prdx6 (peroxiredoxin 6) - Rat Genome Database
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Gene: Prdx6 (peroxiredoxin 6) Rattus norvegicus
Analyze
Symbol: Prdx6
Name: peroxiredoxin 6
RGD ID: 71005
Description: Exhibits 1-acylglycerophosphocholine O-acyltransferase activity and glutathione peroxidase activity. Involved in hydrogen peroxide catabolic process. Predicted to localize to cytosol; nucleus; and perinuclear region of cytoplasm. Orthologous to human PRDX6 (peroxiredoxin 6); PARTICIPATES IN phenylalanine metabolic pathway; INTERACTS WITH (R)-adrenaline; 2,3,7,8-tetrachlorodibenzodioxine; 2,4,6-trinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 1-Cys peroxiredoxin; 1-Cys PRX; acidic calcium-independent phospholipase A2; aiPLA2; antioxidant protein 2; glutathione-dependent peroxiredoxin; LPC acyltransferase 5; LPCAT-5; lyso-PC acyltransferase 5; lysophosphatidylcholine acyltransferase 5; non-selenium glutathione peroxidase; NSGPx; peroxiredoxin-6; thiol-specific antioxidant protein
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
mRatBN7.21373,528,746 - 73,539,295 (-)NCBI
Rnor_6.0 Ensembl1379,077,033 - 79,088,127 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01379,077,567 - 79,088,113 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01383,972,564 - 83,983,110 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41376,824,968 - 76,835,517 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11376,838,625 - 76,849,719 (-)NCBI
Celera1373,317,100 - 73,327,649 (-)NCBICelera
Cytogenetic Map13q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(R)-adrenaline  (EXP)
1,2-dimethylhydrazine  (ISO)
1,2-naphthoquinone  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrotoluene  (EXP)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
4-amino-2,6-dinitrotoluene  (EXP)
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)
7H-xanthine  (EXP)
9H-xanthine  (EXP)
actinomycin D  (EXP)
aflatoxin B1  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
bleomycin A2  (EXP)
bromobenzene  (EXP)
buta-1,3-diene  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (EXP)
calcium atom  (EXP)
calcium(0)  (EXP)
capsaicin  (ISO)
carbon nanotube  (ISO)
cisplatin  (ISO)
clofibrate  (EXP,ISO)
cobalt dichloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
CU-O LINKAGE  (ISO)
cumene hydroperoxide  (ISO)
dexamethasone  (ISO)
diazinon  (EXP)
diethyldithiocarbamic acid  (EXP)
dioxygen  (EXP,ISO)
doxorubicin  (EXP,ISO)
emodin  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (EXP)
fructose  (EXP)
fumonisin B1  (ISO)
glutathione  (EXP)
herbicide  (ISO)
homocysteine  (ISO)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP,ISO)
ibuprofen  (ISO)
L-ethionine  (EXP)
L-glutamic acid  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
lutein  (ISO)
manganese atom  (EXP)
manganese(0)  (EXP)
mercury atom  (ISO)
mercury(0)  (ISO)
methylene blue  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-methyl-4-phenylpyridinium  (EXP)
naphthalene  (ISO)
nefazodone  (EXP)
nimesulide  (EXP)
Nonylphenol  (EXP)
obeticholic acid  (ISO)
ochratoxin A  (ISO)
okadaic acid  (ISO)
omeprazole  (EXP)
ozone  (EXP)
paracetamol  (ISO)
paraquat  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (EXP,ISO)
permethrin  (EXP)
phenobarbital  (EXP,ISO)
picloram  (ISO)
pirinixic acid  (EXP,ISO)
propiconazole  (ISO)
Propiverine  (EXP)
Pyridostigmine bromide  (EXP)
pyrogallol  (ISO)
quartz  (ISO)
quercetin  (EXP,ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
sarin  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (ISO)
streptozocin  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
toluene  (EXP)
trichlopyr  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:8999971   PMID:9587003   PMID:10893423   PMID:12732627   PMID:16186110   PMID:16330552   PMID:17135244   PMID:17556052   PMID:17633531   PMID:17652308   PMID:18184874   PMID:18614015  
PMID:18694738   PMID:19056867   PMID:19140803   PMID:19188445   PMID:19351539   PMID:19725078   PMID:19946888   PMID:20458337   PMID:20716133   PMID:22166015   PMID:22663767   PMID:23376485  
PMID:23533145   PMID:23580065   PMID:23623867   PMID:24447893   PMID:25468996   PMID:25938937   PMID:27412928   PMID:27660222   PMID:28596967   PMID:29476059   PMID:31238863   PMID:32018008  


Genomics

Comparative Map Data
Prdx6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21373,528,746 - 73,539,295 (-)NCBI
Rnor_6.0 Ensembl1379,077,033 - 79,088,127 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01379,077,567 - 79,088,113 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01383,972,564 - 83,983,110 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41376,824,968 - 76,835,517 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11376,838,625 - 76,849,719 (-)NCBI
Celera1373,317,100 - 73,327,649 (-)NCBICelera
Cytogenetic Map13q22NCBI
PRDX6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1173,477,330 - 173,488,815 (+)EnsemblGRCh38hg38GRCh38
GRCh381173,477,335 - 173,488,815 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371173,446,474 - 173,457,954 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361171,713,109 - 171,724,569 (+)NCBINCBI36hg18NCBI36
Celera1146,555,898 - 146,567,358 (+)NCBI
Cytogenetic Map1q25.1NCBI
HuRef1144,671,177 - 144,682,637 (+)NCBIHuRef
CHM1_11174,868,919 - 174,880,398 (+)NCBICHM1_1
Prdx6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391161,067,682 - 161,078,780 (-)NCBIGRCm39mm39
GRCm39 Ensembl1161,067,682 - 161,078,789 (-)Ensembl
GRCm381161,240,112 - 161,251,210 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1161,240,112 - 161,251,219 (-)EnsemblGRCm38mm10GRCm38
MGSCv371163,170,243 - 163,181,297 (-)NCBIGRCm37mm9NCBIm37
MGSCv361163,076,789 - 163,087,843 (-)NCBImm8
Celera1163,685,242 - 163,696,325 (-)NCBICelera
Cytogenetic Map1H2.1NCBI
cM Map169.75NCBI
Prdx6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540613,717,267 - 13,728,216 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540613,717,267 - 13,728,216 (+)NCBIChiLan1.0ChiLan1.0
PRDX6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11152,694,606 - 152,706,521 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01148,988,836 - 149,000,345 (+)NCBIMhudiblu_PPA_v0panPan3
PRDX6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl725,663,579 - 25,675,754 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1725,663,238 - 25,675,855 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Prdx6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493648114,223,422 - 14,233,634 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRDX6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9115,857,644 - 115,868,892 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19115,857,629 - 115,868,898 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29127,491,864 - 127,503,134 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRDX6
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12555,706,920 - 55,719,196 (-)NCBI
Prdx6
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247718,282,622 - 8,293,799 (-)NCBI

Position Markers
RH128089  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01379,077,590 - 79,077,785NCBIRnor6.0
Rnor_6.01055,491,074 - 55,491,283NCBIRnor6.0
Rnor_5.01383,972,587 - 83,972,782UniSTSRnor5.0
Rnor_5.01055,233,453 - 55,233,662UniSTSRnor5.0
RGSC_v3.41376,824,991 - 76,825,186UniSTSRGSC3.4
RGSC_v3.41055,660,814 - 55,661,023UniSTSRGSC3.4
Celera1373,317,123 - 73,317,318UniSTS
Celera1052,775,812 - 52,776,021UniSTS
Cytogenetic Map13q22UniSTS
Cytogenetic Map10q24UniSTS
RH134407  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01379,077,053 - 79,077,235NCBIRnor6.0
Rnor_6.01055,490,542 - 55,490,725NCBIRnor6.0
Rnor_5.01383,972,050 - 83,972,232UniSTSRnor5.0
Rnor_5.01055,232,921 - 55,233,104UniSTSRnor5.0
RGSC_v3.41376,824,454 - 76,824,636UniSTSRGSC3.4
RGSC_v3.41055,660,282 - 55,660,465UniSTSRGSC3.4
Celera1052,775,280 - 52,775,463UniSTS
Celera1373,316,586 - 73,316,768UniSTS
RH 3.4 Map13447.6UniSTS
Cytogenetic Map13q22UniSTS
Cytogenetic Map10q24UniSTS
BE116085  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01379,082,665 - 79,082,844NCBIRnor6.0
Rnor_5.01383,977,662 - 83,977,841UniSTSRnor5.0
RGSC_v3.41376,830,066 - 76,830,245UniSTSRGSC3.4
Celera1373,322,198 - 73,322,377UniSTS
RH 3.4 Map13441.5UniSTS
Cytogenetic Map13q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131107975663Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13901690682995569Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13901690682995569Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1312193394108478121Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1324502279108770533Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1335301263107975663Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133614753399968921Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133734634882346348Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133937292784372927Rat
10755495Bp387Blood pressure QTL 3873.78arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133950130093652524Rat
4889861Pur29Proteinuria QTL 2913.80.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)134231074486833540Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)134231074487310744Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)134250834587508345Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)134250834587508345Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)134357571788575717Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134567662990676629Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)135108098996080989Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135156924896569248Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)135157782490675199Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1357903612102903612Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1362975663107975663Rat
724564Uae11Urinary albumin excretion QTL 115.7urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)136450135182995671Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)136500824591629354Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1366971778111971778Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1371230858114033958Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1371230858114033958Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1372583716114033958Rat
8655951Rf63Renal function QTL 6312.2blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)137456837882995671Rat
1300166Kidm6Kidney mass QTL 63.93kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)137456837892916783Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)137456837892916783Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)137456837892916783Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)777694986114033958Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:73
Count of miRNA genes:64
Interacting mature miRNAs:69
Transcripts:ENSRNOT00000034583
Prediction methods:Miranda, Rnahybrid
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 1
Medium 2 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000034583   ⟹   ENSRNOP00000030323
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1379,077,033 - 79,088,127 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076989
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1379,079,283 - 79,080,055 (-)Ensembl
RefSeq Acc Id: NM_053576   ⟹   NP_446028
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21373,528,746 - 73,539,295 (-)NCBI
Rnor_6.01379,077,567 - 79,088,113 (-)NCBI
Rnor_5.01383,972,564 - 83,983,110 (-)NCBI
RGSC_v3.41376,824,968 - 76,835,517 (-)RGD
Celera1373,317,100 - 73,327,649 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_446028 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB66341 (Get FASTA)   NCBI Sequence Viewer  
  CAA76732 (Get FASTA)   NCBI Sequence Viewer  
  EDM09416 (Get FASTA)   NCBI Sequence Viewer  
  EDM09417 (Get FASTA)   NCBI Sequence Viewer  
  O35244 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446028   ⟸   NM_053576
- UniProtKB: O35244 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000030323   ⟸   ENSRNOT00000034583
Protein Domains
Thioredoxin

Transcriptome

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

Promoters
RGD ID:13698932
Promoter ID:EPDNEW_R9457
Type:initiation region
Name:Prdx6_1
Description:peroxiredoxin 6
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_6.01379,088,142 - 79,088,202EPDNEW

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)
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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
BN/SsN (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
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:71005 AgrOrtholog
Ensembl Genes ENSRNOG00000002896 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000030323 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000034583 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.30.10 UniProtKB/Swiss-Prot
InterPro AhpC/TSA UniProtKB/Swiss-Prot
  Peroxiredoxin_AhpC-typ UniProtKB/Swiss-Prot
  Peroxiredoxin_C UniProtKB/Swiss-Prot
  Thioredoxin-like_sf UniProtKB/Swiss-Prot
  Thioredoxin_domain UniProtKB/Swiss-Prot
KEGG Report rno:94167 UniProtKB/Swiss-Prot
NCBI Gene 94167 ENTREZGENE
Pfam 1-cysPrx_C UniProtKB/Swiss-Prot
  AhpC-TSA UniProtKB/Swiss-Prot
PhenoGen Prdx6 PhenoGen
PIRSF AHPC UniProtKB/Swiss-Prot
PROSITE THIOREDOXIN_2 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52833 UniProtKB/Swiss-Prot
UniProt O35244 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Prdx6  peroxiredoxin 6      Symbol and Name status set to approved 1299863 APPROVED
2003-05-22 Prdx6  peroxiredoxin 6  Prdx5  peroxiredoxin 5  Symbol and Name updated to reflect Human and Mouse nomenclature 629527 PROVISIONAL
2002-07-09 Prdx5  peroxiredoxin 5      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference