Pir (pirin) - Rat Genome Database
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Gene: Pir (pirin) Rattus norvegicus
Analyze
Symbol: Pir
Name: pirin
RGD ID: 1359212
Description: Predicted to have metal ion binding activity; quercetin 2,3-dioxygenase activity; and transcription coregulator activity. Predicted to be involved in monocyte differentiation. Predicted to localize to cytosol and nucleus. Orthologous to human PIR (pirin); INTERACTS WITH 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: MGC109484; pirin (iron-binding nuclear protein); probable quercetin 2,3-dioxygenase PIR; probable quercetinase
Orthologs:
Homo sapiens (human) : PIR (pirin)  HGNC  Alliance
Mus musculus (house mouse) : Pir (pirin)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Pir (pirin)
Pan paniscus (bonobo/pygmy chimpanzee) : PIR (pirin)
Canis lupus familiaris (dog) : PIR (pirin)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Pir (pirin)
Sus scrofa (pig) : PIR (pirin)
Chlorocebus sabaeus (African green monkey) : PIR (pirin)
Heterocephalus glaber (naked mole-rat) : Pir (pirin)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0X31,852,322 - 31,968,152 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX31,852,323 - 31,968,152 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X32,226,073 - 32,341,358 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X50,864,981 - 50,974,861 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X50,918,450 - 51,028,330 (-)NCBI
CeleraX30,455,202 - 30,563,741 (-)NCBICelera
Cytogenetic MapXq14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
1,4-phenylenediamine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-nitropyrene  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4,6-trinitrotoluene  (EXP)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-amino-4,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-phenylprop-2-enal  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
9-cis-retinoic acid  (ISO)
acetamide  (EXP)
adefovir pivoxil  (ISO)
aflatoxin B1  (EXP,ISO)
aflatoxin B2  (ISO)
all-trans-4-oxoretinoic acid  (ISO)
all-trans-retinoic acid  (ISO)
ampicillin  (ISO)
antirheumatic drug  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
benzylpenicillin  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
bromobenzene  (EXP)
cadmium dichloride  (ISO)
cadmium sulfate  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
cefaloridine  (EXP)
chloroacetaldehyde  (ISO)
chloroprene  (EXP,ISO)
chlorpromazine  (EXP)
cidofovir anhydrous  (ISO)
cisplatin  (ISO)
clodronic acid  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (EXP,ISO)
copper atom  (ISO)
copper(0)  (ISO)
curcumin  (EXP)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diethyl maleate  (ISO)
diethylstilbestrol  (EXP)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
fenofibrate  (EXP)
finasteride  (EXP)
fipronil  (EXP)
flutamide  (EXP)
formaldehyde  (ISO)
hydrogen peroxide  (ISO)
indole-3-methanol  (EXP)
indometacin  (ISO)
isoflavones  (ISO)
isoprenaline  (ISO)
isotretinoin  (ISO)
lead diacetate  (ISO)
leflunomide  (EXP)
mercury dibromide  (ISO)
mercury dichloride  (ISO)
metformin  (EXP)
methapyrilene  (ISO)
methylmercury chloride  (ISO)
mitomycin C  (ISO)
N(6)-dimethylallyladenine  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP)
nefazodone  (EXP)
nevirapine  (EXP)
nickel sulfate  (ISO)
nimesulide  (EXP)
oxaliplatin  (EXP)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (EXP,ISO)
pentachlorophenol  (ISO)
phenobarbital  (ISO)
phenoxymethylpenicillin  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
quercetin  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
sodium arsenite  (ISO)
sodium dodecyl sulfate  (ISO)
succimer  (ISO)
sulfamethoxazole  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tetrachloromethane  (EXP)
thimerosal  (ISO)
thioacetamide  (EXP)
topotecan  (EXP)
triphenyl phosphate  (EXP)
Tungsten carbide  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vincaleukoblastine  (ISO)
vinclozolin  (EXP)
xylitol  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (ISO,ISS)
cytosol  (IEA,ISO)
nucleus  (IBA,ISO,ISS)

Molecular Function

References

Additional References at PubMed
PMID:15951572   PMID:20010624   PMID:20089166   PMID:20711196   PMID:23716661  


Genomics

Comparative Map Data
Pir
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0X31,852,322 - 31,968,152 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX31,852,323 - 31,968,152 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X32,226,073 - 32,341,358 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X50,864,981 - 50,974,861 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X50,918,450 - 51,028,330 (-)NCBI
CeleraX30,455,202 - 30,563,741 (-)NCBICelera
Cytogenetic MapXq14NCBI
PIR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX15,384,799 - 15,493,564 (-)EnsemblGRCh38hg38GRCh38
GRCh38X15,384,799 - 15,493,333 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X15,402,921 - 15,511,711 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X15,312,842 - 15,421,385 (-)NCBINCBI36hg18NCBI36
Build 34X15,162,582 - 15,271,113NCBI
CeleraX19,518,436 - 19,626,837 (-)NCBI
Cytogenetic MapXp22.2NCBI
HuRefX13,159,639 - 13,268,835 (-)NCBIHuRef
CHM1_1X15,433,843 - 15,542,647 (-)NCBICHM1_1
Pir
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X163,052,427 - 163,156,009 (+)NCBI
GRCm38X164,269,431 - 164,373,013 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX164,269,371 - 164,373,011 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X160,707,363 - 160,810,945 (+)NCBIGRCm37mm9NCBIm37
MGSCv36X159,613,542 - 159,717,010 (+)NCBImm8
CeleraX147,485,273 - 147,588,412 (+)NCBICelera
Cytogenetic MapXF5NCBI
Pir
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555192,698,172 - 2,813,206 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555192,698,207 - 2,813,201 (+)NCBIChiLan1.0ChiLan1.0
PIR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X15,294,094 - 15,403,506 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX15,294,099 - 15,404,004 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X8,011,382 - 8,121,994 (-)NCBIMhudiblu_PPA_v0panPan3
PIR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 EnsemblX11,627,337 - 11,733,489 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1X11,627,337 - 11,733,489 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Pir
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049364704,794,803 - 4,902,211 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PIR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX11,934,161 - 12,033,746 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X11,934,157 - 12,034,629 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X12,894,760 - 12,994,430 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PIR
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 EnsemblX13,854,236 - 13,966,506 (-)Ensembl
ChlSab1.1X13,854,356 - 13,966,554 (-)NCBI
Pir
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624829181,918 - 286,348 (-)NCBI

Position Markers
DXGot128  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0X31,864,308 - 31,864,388NCBIRnor6.0
Rnor_5.0X32,238,059 - 32,238,139UniSTSRnor5.0
RGSC_v3.4X50,877,681 - 50,877,761UniSTSRGSC3.4
CeleraX30,467,840 - 30,467,920UniSTS
Cytogenetic MapXq21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X144092703Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X166260933443848Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X428214049282140Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X595407850954078Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X15688119127888215Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1815335263153352Rat
1598873Memor2Memory QTL 22.5exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)X2159262344320739Rat
2290375Gluco34Glucose level QTL 342.75blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X2159262344468300Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:112
Count of miRNA genes:85
Interacting mature miRNAs:100
Transcripts:ENSRNOT00000004884
Prediction methods:Miranda, Pita, 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
Medium 2 10 27 20 3 20 19 2 32 11
Low 1 33 30 21 16 21 8 10 55 33 9 8
Below cutoff 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001009474 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07037820 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07037821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07037822 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07037823 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07037824 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01109887 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01109888 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01109889 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01109890 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01109891 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01109892 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01109893 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01109894 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01109895 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC088290 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000004884   ⟹   ENSRNOP00000004884
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX31,852,323 - 31,968,152 (-)Ensembl
RefSeq Acc Id: NM_001009474   ⟹   NP_001009474
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X31,852,322 - 31,968,152 (-)NCBI
Rnor_5.0X32,226,073 - 32,341,358 (-)NCBI
RGSC_v3.4X50,864,981 - 50,974,861 (-)RGD
CeleraX30,455,202 - 30,563,741 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001009474 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH88290 (Get FASTA)   NCBI Sequence Viewer  
  Q5M827 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001009474   ⟸   NM_001009474
- UniProtKB: Q5M827 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004884   ⟸   ENSRNOT00000004884

Transcriptome

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

Promoters
RGD ID:13701796
Promoter ID:EPDNEW_R12320
Type:initiation region
Name:Pir_1
Description:pirin
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_6.0X31,968,113 - 31,968,173EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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)
FHL/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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
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:1359212 AgrOrtholog
Ensembl Genes ENSRNOG00000003674 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000004884 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004884 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.120.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7322321 IMAGE-MGC_LOAD
InterPro Pirin UniProtKB/Swiss-Prot
  Pirin_C_dom UniProtKB/Swiss-Prot
  Pirin_N_dom UniProtKB/Swiss-Prot
  RmlC-like_jellyroll UniProtKB/Swiss-Prot
  RmlC_Cupin_sf UniProtKB/Swiss-Prot
KEGG Report rno:363465 UniProtKB/Swiss-Prot
MGC_CLONE MGC:109484 IMAGE-MGC_LOAD
NCBI Gene 363465 ENTREZGENE
Pfam Pirin UniProtKB/Swiss-Prot
  Pirin_C UniProtKB/Swiss-Prot
PhenoGen Pir PhenoGen
PIRSF Pirin UniProtKB/Swiss-Prot
Superfamily-SCOP SSF51182 UniProtKB/Swiss-Prot
UniGene Rn.103685 ENTREZGENE
UniProt PIR_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-10 Pir  pirin  Pir  pirin (iron-binding nuclear protein)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 Pir  pirin (iron-binding nuclear protein)  Pir  pirin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 Pir  pirin      Symbol and Name status set to approved 1299863 APPROVED
2005-07-29 Pir  pirin      Symbol and Name status set to provisional 70820 PROVISIONAL