Irf1 (interferon regulatory factor 1) - Rat Genome Database

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Gene: Irf1 (interferon regulatory factor 1) Rattus norvegicus
Analyze
Symbol: Irf1
Name: interferon regulatory factor 1
RGD ID: 2920
Description: Enables sequence-specific DNA binding activity. Involved in several processes, including cellular response to cytokine stimulus; cellular response to exogenous dsRNA; and response to peptide hormone. Predicted to be located in cytoplasm. Predicted to be part of chromatin. Predicted to be active in nucleus. Used to study endometrial adenocarcinoma. Biomarker of allergic conjunctivitis; lung disease; respiratory syncytial virus infectious disease; and ureteral obstruction. Human ortholog(s) of this gene implicated in asthma; gastric adenocarcinoma; lung non-small cell carcinoma; smallpox; and stomach cancer. Orthologous to human IRF1 (interferon regulatory factor 1); PARTICIPATES IN Jak-Stat signaling pathway; nuclear factor kappa B signaling pathway; p38 MAPK signaling pathway; INTERACTS WITH 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 2,3,7,8-tetrachlorodibenzodioxine; 2-nitrofluorene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: IRF-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Candidate Gene For: Bmd4 Eau7
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21037,917,155 - 37,924,166 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1037,916,670 - 37,924,166 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1042,609,084 - 42,616,097 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01042,099,164 - 42,106,177 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01037,602,877 - 37,609,890 (+)NCBIRnor_WKY
Rnor_6.01039,109,530 - 39,116,532 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1039,109,522 - 39,116,531 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01038,891,468 - 38,898,470 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41039,220,600 - 39,227,602 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11039,229,846 - 39,236,848 (+)NCBI
Celera1037,260,559 - 37,267,561 (+)NCBICelera
RH 3.4 Map10405.3RGD
Cytogenetic Map10q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-alpha-viniferin  (ISO)
(-)-demecolcine  (ISO)
(R)-lipoic acid  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,2-dimethylhydrazine  (ISO)
1,4-benzoquinone  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-nitropyrene  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17beta-estradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
2-bromohexadecanoic acid  (ISO)
2-nitrofluorene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,3',5-triiodo-L-thyronine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (EXP)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-tert-Octylphenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
9-cis-retinoic acid  (ISO)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
acrylamide  (EXP)
actinomycin D  (ISO)
aldehydo-D-glucosamine  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
antimycin A  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
azathioprine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
beta-D-glucosamine  (ISO)
beta-naphthoflavone  (EXP,ISO)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
buspirone  (EXP)
cadmium selenide  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroprene  (EXP)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
ciglitazone  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clofibric acid  (EXP)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
dacarbazine  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP,ISO)
diethylstilbestrol  (EXP)
dimethyl fumarate  (ISO)
dimethylarsinic acid  (EXP)
divanadium pentaoxide  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fluoranthene  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gentamycin  (EXP)
geraniol  (ISO)
GW 1929  (ISO)
hexachlorobenzene  (EXP)
indole-3-methanol  (EXP)
isotretinoin  (ISO)
leflunomide  (ISO)
lipoic acid  (ISO)
lipopolysaccharide  (ISO)
mangiferin  (ISO)
mercury atom  (ISO)
mercury dichloride  (ISO)
mercury(0)  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylseleninic acid  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-methyl-N-nitrosourea  (EXP,ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
nickel atom  (ISO)
nickel sulfate  (ISO)
nimesulide  (EXP)
oxaliplatin  (EXP)
p-menthan-3-ol  (ISO)
p-tert-Amylphenol  (EXP)
paraquat  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (EXP)
phenobarbital  (EXP,ISO)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
puromycin  (ISO)
pyrrolidine dithiocarbamate  (ISO)
reactive oxygen species  (ISO)
resveratrol  (EXP,ISO)
Ro 41-5253  (ISO)
ruxolitinib  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
sotorasib  (ISO)
SR 144528  (ISO)
streptozocin  (EXP)
sunitinib  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
tebufenpyrad  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP)
thifluzamide  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trametinib  (ISO)
Tributyltin oxide  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (EXP)
triphenyl phosphate  (EXP)
triptonide  (ISO)
troglitazone  (ISO)
trovafloxacin  (EXP,ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
apoptotic process  (ISO,ISS)
CD8-positive, alpha-beta T cell differentiation  (ISO)
cellular response to exogenous dsRNA  (IEP)
cellular response to interferon-beta  (IEP,ISO)
cellular response to interleukin-1  (IDA)
cellular response to mechanical stimulus  (ISO)
cellular response to peptide hormone stimulus  (IDA)
cellular response to retinoic acid  (IEP)
cellular response to tumor necrosis factor  (IDA)
cellular response to type II interferon  (IEP)
defense response to virus  (ISO,ISS)
DNA-templated transcription  (IEA)
female pregnancy  (IEP)
I-kappaB kinase/NF-kappaB signaling  (IMP)
immune system process  (IBA)
negative regulation of DNA-templated transcription  (ISO,ISS)
negative regulation of regulatory T cell differentiation  (ISO,ISS)
negative regulation of tyrosine phosphorylation of STAT protein  (IMP)
positive regulation of apoptotic process  (IMP)
positive regulation of DNA-templated transcription  (ISO,ISS)
positive regulation of interferon-beta production  (ISO,ISS)
positive regulation of interleukin-12 production  (ISO)
positive regulation of transcription by RNA polymerase II  (IMP,ISO,ISS)
positive regulation of type I interferon production  (ISO,ISS)
regulation of CD8-positive, alpha-beta T cell proliferation  (ISO,ISS)
regulation of cell cycle  (ISO,ISS)
regulation of cell population proliferation  (NAS)
regulation of DNA-templated transcription  (IEA,TAS)
regulation of gene expression  (ISO)
regulation of MyD88-dependent toll-like receptor signaling pathway  (ISO,ISS)
regulation of transcription by RNA polymerase II  (IBA)
response to growth hormone  (IDA)
transcription by RNA polymerase II  (ISO)
type II interferon-mediated signaling pathway  (ISO,ISS)

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

References

References - curated
# Reference Title Reference Citation
1. Prolactin activation of IRF-1 transcription involves changes in histone acetylation. Book McAlexander M and Yu-Lee L, FEBS Lett. 2001 Jan 12;488(1-2):91-4.
2. Anti-inflammatory roles of retinoic acid in rat brain astrocytes: Suppression of interferon-gamma-induced JAK/STAT phosphorylation. Choi WH, etal., Biochem Biophys Res Commun. 2005 Apr 1;329(1):125-31.
3. Expression of the nitric oxide synthase 2 gene is not essential for early control of Mycobacterium tuberculosis in the murine lung. Cooper AM, etal., Infect Immun. 2000 Dec;68(12):6879-82.
4. Taxol activates inducible nitric oxide synthase in rat astrocytes: the role of MAP kinases and NF-kappaB. Cvetkovic I, etal., Cell Mol Life Sci. 2004 May;61(10):1167-75.
5. Prolactin activates interferon regulatory factor-1 expression in normal lympho-hemopoietic cells. Dogusan Z, etal., Eur Cytokine Netw. 2000 Sep;11(3):435-42.
6. Type I interferons and IRF-1 play a critical role in the control of a gammaherpesvirus infection. Dutia BM, etal., Virology. 1999 Sep 1;261(2):173-9.
7. Interferon regulatory factor 1 tryptophan 11 to arginine point mutation abolishes DNA binding. Eason DD, etal., Biochim Biophys Acta. 1999 Jul 7;1446(1-2):140-4.
8. Differential expression and signaling of IFN-gamma in the conjunctiva between Lewis and Brown Norway rats. Fukushima A, etal., Microbiol Immunol. 2003;47(10):785-96.
9. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
11. Interferon-regulated pathways that control hepatitis B virus replication in transgenic mice. Guidotti LG, etal., J Virol. 2002 Mar;76(6):2617-21. doi: 10.1128/jvi.76.6.2617-2621.2002.
12. Cooperative contributions of Interferon regulatory factor 1 (IRF1) and IRF8 to interferon-gamma-mediated cytotoxic effects on oligodendroglial progenitor cells. Horiuchi M, etal., J Neuroinflammation. 2011 Jan 24;8(1):8.
13. In vivo alterations of IFN regulatory factor-1 and PIAS1 protein levels in cystic fibrosis epithelium. Kelley TJ and Elmer HL, J Clin Invest. 2000 Aug;106(3):403-10.
14. Identification of differentially expressed genes after heat shock in isolated rat aorta. Kim JI, etal., Clin Exp Pharmacol Physiol. 2007 Jul;34(7):636-40.
15. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
16. Growth hormone stimulates interferon regulatory factor-1 gene expression in the liver. Le Stunff C and Rotwein P, Endocrinology. 1998 Mar;139(3):859-66.
17. Histone deacetylase-1 is enriched at the platelet-derived growth factor-D promoter in response to interleukin-1beta and forms a cytokine-inducible gene-silencing complex with NF-kappab p65 and interferon regulatory factor-1. Liu MY and Khachigian LM, J Biol Chem. 2009 Dec 11;284(50):35101-12. Epub 2009 Oct 20.
18. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
19. STAT1 is a master regulator of pancreatic {beta}-cell apoptosis and islet inflammation. Moore F, etal., J Biol Chem. 2011 Jan 14;286(2):929-41. Epub 2010 Oct 27.
20. Double-stranded RNA-induced interferon regulatory factor-1 gene expression in FRTL-5 rat thyroid cells. Mori K, etal., Mol Cell Endocrinol. 2001 Nov 26;184(1-2):77-86.
21. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
22. Mutation screening of interferon regulatory factor 1 gene (IRF-1) as a candidate gene for atopy/asthma. Noguchi E, etal., Clin Exp Allergy. 2000 Nov;30(11):1562-7.
23. Functionally inactivating point mutation in the tumor-suppressor IRF-1 gene identified in human gastric cancer. Nozawa H, etal., Int J Cancer. 1998 Aug 12;77(4):522-7.
24. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
25. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
26. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
27. Gene expression analysis of spontaneously hypertensive rat cerebral cortex following transient focal cerebral ischemia. Raghavendra Rao VL, etal., J Neurochem 2002 Dec;83(5):1072-86.
28. Traumatic brain injury-induced acute gene expression changes in rat cerebral cortex identified by GeneChip analysis. Raghavendra Rao VL, etal., J Neurosci Res. 2003 Jan 15;71(2):208-19.
29. Genetic basis for adverse events after smallpox vaccination. Reif DM, etal., J Infect Dis. 2008 Jul 1;198(1):16-22. doi: 10.1086/588670.
30. GOA pipeline RGD automated data pipeline
31. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
32. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
33. Comprehensive gene review and curation RGD comprehensive gene curation
34. Peptide YY reverses TNF-alpha induced transcription factor binding of interferon regulatory factor-1 and p53 in pancreatic acinar cells. Rizvi IA, etal., J Surg Res. 2006 Nov;136(1):25-30. Epub 2006 Sep 15.
35. Constitutive activation of an epithelial signal transducer and activator of transcription (STAT) pathway in asthma. Sampath D, etal., J Clin Invest. 1999 May;103(9):1353-61.
36. Molecular classification of spontaneous endometrial adenocarcinomas in BDII rats. Samuelson E, etal., Endocr Relat Cancer. 2009 Mar;16(1):99-111. Epub 2008 Dec 15.
37. Altered expression of immune modulator and structural genes in neonatal unilateral ureteral obstruction. Silverstein DM, etal., Kidney Int. 2003 Jul;64(1):25-35.
38. GeneChip analysis after acute spinal cord injury in rat. Song G, etal., J Neurochem. 2001 Nov;79(4):804-15.
39. IFN-gamma promotes apoptosis of the uterus and placenta in pregnant rat and human cytotrophoblast cells. Sun QH, etal., J Interferon Cytokine Res. 2007 Jul;27(7):567-78.
40. Activation of type II alveolar epithelial cells during acute endotoxemia. Sunil VR, etal., Am J Physiol Lung Cell Mol Physiol. 2002 Apr;282(4):L872-80.
41. [Transcription factors in spinal dorsal root ganglion in rats recurrently infected with respiratory syncytial virus]. Tan H, etal., Zhong Nan Da Xue Xue Bao Yi Xue Ban. 2009 Dec;34(12):1189-95.
42. Molecular mechanisms of iNOS induction by IL-1 beta and IFN-gamma in rat aortic smooth muscle cells. Teng X, etal., Am J Physiol Cell Physiol 2002 Jan;282(1):C144-52.
43. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
44. Association of interferon-gamma and interferon regulatory factor 1 polymorphisms with asthma in a family-based association study in Taiwan. Wang TN, etal., Clin Exp Allergy. 2006 Sep;36(9):1147-52.
45. Pulmonary inflammation induced by Pseudomonas aeruginosa lipopolysaccharide, phospholipase C, and exotoxin A: role of interferon regulatory factor 1. Wieland CW, etal., Infect Immun. 2002 Mar;70(3):1352-8.
46. Interferon-regulatory factor 1 is an immediate-early gene under transcriptional regulation by prolactin in Nb2 T cells. Yu-Lee LY, etal., Mol Cell Biol 1990 Jun;10(6):3087-94.
Additional References at PubMed
PMID:11359801   PMID:12477932   PMID:14568984   PMID:15509808   PMID:17018642   PMID:17159910   PMID:17516545   PMID:17723228   PMID:18035482   PMID:18084608   PMID:18641303   PMID:19593445  
PMID:19606498   PMID:19851330   PMID:20308629   PMID:20451243   PMID:21389130   PMID:21478870   PMID:21909274   PMID:21937806   PMID:22200613   PMID:22292067   PMID:22367195   PMID:22427665  
PMID:22434733   PMID:23042740   PMID:24119616   PMID:24743731   PMID:26342280   PMID:37098476  


Genomics

Comparative Map Data
Irf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21037,917,155 - 37,924,166 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1037,916,670 - 37,924,166 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1042,609,084 - 42,616,097 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01042,099,164 - 42,106,177 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01037,602,877 - 37,609,890 (+)NCBIRnor_WKY
Rnor_6.01039,109,530 - 39,116,532 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1039,109,522 - 39,116,531 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01038,891,468 - 38,898,470 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41039,220,600 - 39,227,602 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11039,229,846 - 39,236,848 (+)NCBI
Celera1037,260,559 - 37,267,561 (+)NCBICelera
RH 3.4 Map10405.3RGD
Cytogenetic Map10q22NCBI
IRF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385132,481,609 - 132,490,773 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl5132,440,440 - 132,508,719 (-)EnsemblGRCh38hg38GRCh38
GRCh375131,817,301 - 131,826,465 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365131,846,679 - 131,854,326 (-)NCBINCBI36Build 36hg18NCBI36
Build 345131,846,683 - 131,854,326NCBI
Celera5127,947,368 - 127,956,530 (-)NCBICelera
Cytogenetic Map5q31.1NCBI
HuRef5127,009,541 - 127,018,697 (-)NCBIHuRef
CHM1_15131,250,016 - 131,259,179 (-)NCBICHM1_1
T2T-CHM13v2.05133,001,395 - 133,010,551 (-)NCBIT2T-CHM13v2.0
Irf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391153,660,841 - 53,669,200 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1153,660,841 - 53,669,200 (+)EnsemblGRCm39 Ensembl
GRCm381153,770,014 - 53,778,374 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1153,770,014 - 53,778,374 (+)EnsemblGRCm38mm10GRCm38
MGSCv371153,583,516 - 53,591,876 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361153,613,501 - 53,620,746 (+)NCBIMGSCv36mm8
Celera1158,349,840 - 58,358,199 (+)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1132.0NCBI
Irf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554083,880,155 - 3,887,973 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554083,882,282 - 3,887,965 (-)NCBIChiLan1.0ChiLan1.0
IRF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan15125,938,753 - 125,947,988 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05127,903,887 - 127,913,843 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15134,066,250 - 134,075,035 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5134,067,441 - 134,075,035 (-)Ensemblpanpan1.1panPan2
IRF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11120,773,801 - 20,781,106 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1120,760,120 - 20,781,608 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1119,575,525 - 19,582,746 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01121,559,527 - 21,566,744 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1121,559,526 - 21,566,930 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11120,278,269 - 20,285,484 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01120,126,105 - 20,133,315 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01120,768,242 - 20,775,474 (-)NCBIUU_Cfam_GSD_1.0
Irf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213115,683,543 - 115,690,876 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366472,686,414 - 2,693,636 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049366472,686,247 - 2,693,633 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IRF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2134,776,129 - 134,783,801 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12134,776,122 - 134,783,646 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22140,229,799 - 140,252,658 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap2q24-q29NCBI
IRF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12335,309,058 - 35,317,765 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2335,307,772 - 35,316,763 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603442,627,248 - 42,635,033 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Irf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473339,596,501 - 39,603,526 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473339,596,565 - 39,603,428 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Irf1
100 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:713
Count of miRNA genes:281
Interacting mature miRNAs:359
Transcripts:ENSRNOT00000010968
Prediction methods:Microtar, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102887565052200160Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103449055945579777Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103539226751793994Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103539226764155584Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103539245763642539Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat

Markers in Region
RH94542  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21037,923,609 - 37,923,770 (+)MAPPERmRatBN7.2
Rnor_6.01039,115,976 - 39,116,136NCBIRnor6.0
Rnor_5.01038,897,914 - 38,898,074UniSTSRnor5.0
RGSC_v3.41039,227,046 - 39,227,206UniSTSRGSC3.4
Celera1037,267,005 - 37,267,165UniSTS
RH 3.4 Map10405.3UniSTS
Cytogenetic Map10q22UniSTS


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 18 38 22 19 22 4 27 30 11
Low 25 19 19 19 8 11 70 8 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000010968   ⟹   ENSRNOP00000010968
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1037,916,670 - 37,924,166 (+)Ensembl
Rnor_6.0 Ensembl1039,109,522 - 39,116,531 (+)Ensembl
RefSeq Acc Id: NM_012591   ⟹   NP_036723
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21037,917,155 - 37,924,166 (+)NCBI
Rnor_6.01039,109,530 - 39,116,532 (+)NCBI
Rnor_5.01038,891,468 - 38,898,470 (+)NCBI
RGSC_v3.41039,220,600 - 39,227,602 (+)RGD
Celera1037,260,559 - 37,267,561 (+)RGD
Sequence:
RefSeq Acc Id: XM_039085188   ⟹   XP_038941116
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21037,917,464 - 37,923,607 (+)NCBI
RefSeq Acc Id: XM_039085189   ⟹   XP_038941117
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21037,917,326 - 37,923,607 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_036723   ⟸   NM_012591
- UniProtKB: Q6DGG4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000010968   ⟸   ENSRNOT00000010968
RefSeq Acc Id: XP_038941117   ⟸   XM_039085189
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038941116   ⟸   XM_039085188
- Peptide Label: isoform X1
- UniProtKB: Q6DGG4 (UniProtKB/TrEMBL)
Protein Domains
IRF tryptophan pentad repeat

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P23570-F1-model_v2 AlphaFold P23570 1-328 view protein structure

Transcriptome

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

Promoters
RGD ID:13697183
Promoter ID:EPDNEW_R7707
Type:multiple initiation site
Name:Irf1_1
Description:interferon regulatory factor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01039,109,506 - 39,109,566EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2920 AgrOrtholog
BioCyc Gene G2FUF-25132 BioCyc
Ensembl Genes ENSRNOG00000008144 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000010968.5 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000010968.7 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7099391 IMAGE-MGC_LOAD
InterPro Interferon_reg_fac_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Interferon_reg_fact_DNA-bd_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IRF1/IRF2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24508 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93592 IMAGE-MGC_LOAD
NCBI Gene 24508 ENTREZGENE
PANTHER INTERFERON REGULATORY FACTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11949:SF3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam IRF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Irf1 PhenoGen
PIRSF IFN_RF1/2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS INTFRNREGFCT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE IRF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IRF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART IRF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46785 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC206594
UniProt F7EXR9_RAT UniProtKB/TrEMBL
  IRF1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6DGG4 ENTREZGENE, UniProtKB/TrEMBL
  Q812C6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Irf1  Interferon regulatory factor 1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression isolated from Prl-stimulated T cells 633034
gene_homology protein is 97% and 92% identical to the mouse IRF-1 and human IRF-1 respectively 633034
gene_process regulates growth-inhibitory interferon genes during cell proliferation 633034