Irf9 (interferon regulatory factor 9) - Rat Genome Database

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Gene: Irf9 (interferon regulatory factor 9) Rattus norvegicus
Analyze
Symbol: Irf9
Name: interferon regulatory factor 9
RGD ID: 1308766
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in immune system process and positive regulation of transcription by RNA polymerase II. Predicted to be located in cytosol. Predicted to be part of ISGF3 complex. Predicted to be active in nucleus. Biomarker of acute pancreatitis and familial hyperlipidemia. Human ortholog(s) of this gene implicated in immunodeficiency 65. Orthologous to human IRF9 (interferon regulatory factor 9); PARTICIPATES IN type II interferon signaling pathway; hepatitis C pathway; influenza A pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: interferon dependent positive acting transcription factor 3 gamma; Isgf3g; LOC305896
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81533,065,422 - 33,071,881 (+)NCBIGRCr8
mRatBN7.21529,095,474 - 29,101,924 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1529,095,789 - 29,101,236 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1530,941,593 - 30,946,796 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01532,088,791 - 32,093,994 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01530,331,133 - 30,336,336 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01534,282,936 - 34,288,981 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1534,282,936 - 34,288,138 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01538,172,683 - 38,179,176 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41533,739,755 - 33,744,958 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11533,755,454 - 33,760,657 (+)NCBI
Celera1528,671,799 - 28,677,002 (+)NCBICelera
Cytogenetic Map15p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bucladesine  (ISO)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
CGP 52608  (ISO)
clofibrate  (ISO)
cocaine  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
dexamethasone  (ISO)
Dibutyl phosphate  (ISO)
dieldrin  (EXP)
diethyl maleate  (EXP)
dorsomorphin  (ISO)
elemental selenium  (ISO)
ellagic acid  (ISO)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
ethyl methanesulfonate  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
glyphosate  (ISO)
indometacin  (ISO)
inulin  (ISO)
linuron  (ISO)
lipopolysaccharide  (ISO)
medroxyprogesterone acetate  (ISO)
methapyrilene  (EXP,ISO)
nickel atom  (ISO)
nicotine  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenylmercury acetate  (ISO)
phenytoin  (EXP)
poly(I:C)  (ISO)
propiconazole  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
ruxolitinib  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
Salinomycin  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
succimer  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP,ISO)
titanium dioxide  (ISO)
tofacitinib  (ISO)
triphenyl phosphate  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vitamin E  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IEA,ISO)
ISGF3 complex  (ISO)
nucleus  (IBA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Mice deficient in STAT1 but not STAT2 or IRF9 develop a lethal CD4+ T-cell-mediated disease following infection with lymphocytic choriomeningitis virus. Hofer MJ, etal., J Virol. 2012 Jun;86(12):6932-46. doi: 10.1128/JVI.07147-11. Epub 2012 Apr 11.
4. IRF9 Prevents CD8+ T Cell Exhaustion in an Extrinsic Manner during Acute Lymphocytic Choriomeningitis Virus Infection. Huber M, etal., J Virol. 2017 Oct 27;91(22). pii: JVI.01219-17. doi: 10.1128/JVI.01219-17. Print 2017 Nov 15.
5. Interferon regulatory factor 9 protects against cardiac hypertrophy by targeting myocardin. Jiang DS, etal., Hypertension. 2014 Jan;63(1):119-27. doi: 10.1161/HYPERTENSIONAHA.113.02083. Epub 2013 Oct 21.
6. Inflammatory monocytes require type I interferon receptor signaling to activate NK cells via IL-18 during a mucosal viral infection. Lee AJ, etal., J Exp Med. 2017 Apr 3;214(4):1153-1167. doi: 10.1084/jem.20160880. Epub 2017 Mar 6.
7. IRF7-dependent type I interferon production induces lethal immune-mediated disease in STAT1 knockout mice infected with lymphocytic choriomeningitis virus. Li W, etal., J Virol. 2014 Jul;88(13):7578-88. doi: 10.1128/JVI.03117-13. Epub 2014 Apr 23.
8. Negative Regulation of SIRT1 by IRF9 Involved in Hyperlipidemia Acute Pancreatitis Associated with Kidney Injury. Liu Y, etal., Dig Dis Sci. 2021 Apr;66(4):1063-1071. doi: 10.1007/s10620-020-06331-1. Epub 2020 May 28.
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
12. Noncanonical Effects of IRF9 in Intestinal Inflammation: More than Type I and Type III Interferons. Rauch I, etal., Mol Cell Biol. 2015 Jul;35(13):2332-43. doi: 10.1128/MCB.01498-14. Epub 2015 Apr 27.
13. GOA pipeline RGD automated data pipeline
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. Roles of unphosphorylated ISGF3 in HCV infection and interferon responsiveness. Sung PS, etal., Proc Natl Acad Sci U S A. 2015 Aug 18;112(33):10443-8. doi: 10.1073/pnas.1513341112. Epub 2015 Jul 27.
16. PDGFR-β modulates vascular smooth muscle cell phenotype via IRF-9/SIRT-1/NF-κB pathway in subarachnoid hemorrhage rats. Wan W, etal., J Cereb Blood Flow Metab. 2019 Jul;39(7):1369-1380. doi: 10.1177/0271678X18760954. Epub 2018 Feb 26.
17. Interferon regulatory factor 9 is an essential mediator of heart dysfunction and cell death following myocardial ischemia/reperfusion injury. Zhang Y, etal., Basic Res Cardiol. 2014;109(5):434. doi: 10.1007/s00395-014-0434-9. Epub 2014 Aug 24.
Additional References at PubMed
PMID:12477932   PMID:15800576   PMID:24882218   PMID:25319116   PMID:32577948  


Genomics

Comparative Map Data
Irf9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81533,065,422 - 33,071,881 (+)NCBIGRCr8
mRatBN7.21529,095,474 - 29,101,924 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1529,095,789 - 29,101,236 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1530,941,593 - 30,946,796 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01532,088,791 - 32,093,994 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01530,331,133 - 30,336,336 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01534,282,936 - 34,288,981 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1534,282,936 - 34,288,138 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01538,172,683 - 38,179,176 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41533,739,755 - 33,744,958 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11533,755,454 - 33,760,657 (+)NCBI
Celera1528,671,799 - 28,677,002 (+)NCBICelera
Cytogenetic Map15p13NCBI
IRF9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381424,161,265 - 24,166,565 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1424,161,234 - 24,168,043 (+)EnsemblGRCh38hg38GRCh38
GRCh371424,630,474 - 24,635,774 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361423,700,262 - 23,705,614 (+)NCBINCBI36Build 36hg18NCBI36
Build 341423,700,363 - 23,705,612NCBI
Celera144,494,890 - 4,500,242 (+)NCBICelera
Cytogenetic Map14q12NCBI
HuRef144,745,386 - 4,750,738 (+)NCBIHuRef
CHM1_11424,629,072 - 24,634,424 (+)NCBICHM1_1
T2T-CHM13v2.01418,359,574 - 18,364,874 (+)NCBIT2T-CHM13v2.0
Irf9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391455,841,442 - 55,847,487 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1455,841,028 - 55,847,487 (+)EnsemblGRCm39 Ensembl
GRCm381455,603,985 - 55,610,030 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1455,603,571 - 55,610,030 (+)EnsemblGRCm38mm10GRCm38
MGSCv371456,222,822 - 56,228,867 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361454,558,650 - 54,564,101 (+)NCBIMGSCv36mm8
Celera1453,409,045 - 53,415,090 (+)NCBICelera
Cytogenetic Map14C3NCBI
cM Map1428.19NCBI
Irf9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540936,234,077 - 36,239,500 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540936,233,633 - 36,239,916 (-)NCBIChiLan1.0ChiLan1.0
IRF9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21525,515,160 - 25,520,969 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11424,731,654 - 24,737,461 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0144,937,068 - 4,942,870 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11423,061,994 - 23,067,824 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1423,061,990 - 23,067,824 (+)Ensemblpanpan1.1panPan2
IRF9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.184,152,146 - 4,157,201 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha84,073,839 - 4,078,885 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.084,262,726 - 4,267,771 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl84,252,109 - 4,302,591 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.183,953,354 - 3,958,397 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.084,015,093 - 4,020,132 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.084,277,257 - 4,282,303 (+)NCBIUU_Cfam_GSD_1.0
Irf9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864036,003,032 - 36,008,793 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936722380,572 - 384,372 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936722380,193 - 385,887 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IRF9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl775,126,622 - 75,139,640 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1775,133,800 - 75,139,641 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2780,405,098 - 80,410,938 (-)NCBISscrofa10.2Sscrofa10.2susScr3
IRF9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1241,146,116 - 1,151,622 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl241,146,618 - 1,151,546 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603612,828,805 - 12,834,326 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Irf9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248208,370,289 - 8,376,950 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248208,369,830 - 8,376,593 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Irf9
17 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:40
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000026364
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152024860037896129Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)152788577486257085Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15129912054Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat

Markers in Region
RH130362  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21529,100,998 - 29,101,208 (+)MAPPERmRatBN7.2
Rnor_6.01534,288,056 - 34,288,265NCBIRnor6.0
Rnor_5.01538,178,251 - 38,178,460UniSTSRnor5.0
RGSC_v3.41533,744,875 - 33,745,084UniSTSRGSC3.4
Celera1528,676,919 - 28,677,128UniSTS
RH 3.4 Map15260.91UniSTS
Cytogenetic Map15p13UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000026364   ⟹   ENSRNOP00000026364
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1529,095,838 - 29,101,236 (+)Ensembl
Rnor_6.0 Ensembl1534,282,936 - 34,288,138 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000108002   ⟹   ENSRNOP00000080540
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1529,095,789 - 29,101,236 (+)Ensembl
RefSeq Acc Id: NM_001012041   ⟹   NP_001012041
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,065,836 - 33,071,039 (+)NCBI
mRatBN7.21529,095,879 - 29,101,082 (+)NCBI
Rnor_6.01534,282,936 - 34,288,139 (+)NCBI
Rnor_5.01538,172,683 - 38,179,176 (+)NCBI
RGSC_v3.41533,739,755 - 33,744,958 (+)RGD
Celera1528,671,799 - 28,677,002 (+)RGD
Sequence:
RefSeq Acc Id: XM_006251974   ⟹   XP_006252036
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,065,897 - 33,071,881 (+)NCBI
mRatBN7.21529,095,935 - 29,101,924 (+)NCBI
Rnor_6.01534,282,964 - 34,288,981 (+)NCBI
Rnor_5.01538,172,683 - 38,179,176 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251975   ⟹   XP_006252037
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,066,420 - 33,071,881 (+)NCBI
mRatBN7.21529,096,459 - 29,101,924 (+)NCBI
Rnor_6.01534,283,566 - 34,288,981 (+)NCBI
Rnor_5.01538,172,683 - 38,179,176 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008770679   ⟹   XP_008768901
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,065,422 - 33,071,881 (+)NCBI
mRatBN7.21529,095,474 - 29,101,924 (+)NCBI
Rnor_6.01534,283,446 - 34,288,981 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039093300   ⟹   XP_038949228
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,065,422 - 33,071,881 (+)NCBI
mRatBN7.21529,095,474 - 29,101,924 (+)NCBI
RefSeq Acc Id: XM_063274256   ⟹   XP_063130326
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,065,422 - 33,069,218 (+)NCBI
RefSeq Acc Id: NP_001012041   ⟸   NM_001012041
- UniProtKB: Q68FP4 (UniProtKB/TrEMBL),   A0A8I5ZQE9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252036   ⟸   XM_006251974
- Peptide Label: isoform X2
- UniProtKB: G3V8J4 (UniProtKB/TrEMBL),   A6KH21 (UniProtKB/TrEMBL),   A0A8I5ZQE9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252037   ⟸   XM_006251975
- Peptide Label: isoform X2
- UniProtKB: G3V8J4 (UniProtKB/TrEMBL),   A6KH21 (UniProtKB/TrEMBL),   A0A8I5ZQE9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768901   ⟸   XM_008770679
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZQE9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000026364   ⟸   ENSRNOT00000026364
RefSeq Acc Id: XP_038949228   ⟸   XM_039093300
- Peptide Label: isoform X2
- UniProtKB: G3V8J4 (UniProtKB/TrEMBL),   A6KH21 (UniProtKB/TrEMBL),   A0A8I5ZQE9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000080540   ⟸   ENSRNOT00000108002
RefSeq Acc Id: XP_063130326   ⟸   XM_063274256
- Peptide Label: isoform X3
Protein Domains
IRF tryptophan pentad repeat

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V8J4-F1-model_v2 AlphaFold G3V8J4 1-398 view protein structure

Transcriptome

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

Promoters
RGD ID:13699676
Promoter ID:EPDNEW_R10199
Type:multiple initiation site
Name:Irf9_1
Description:interferon regulatory factor 9
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_6.01534,282,920 - 34,282,980EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308766 AgrOrtholog
BioCyc Gene G2FUF-13708 BioCyc
Ensembl Genes ENSRNOG00000019478 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026364.5 UniProtKB/TrEMBL
  ENSRNOT00000108002.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
  2.60.200.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7121327 IMAGE-MGC_LOAD
InterPro Interferon_reg_fac_CS UniProtKB/TrEMBL
  Interferon_reg_fact_DNA-bd_dom UniProtKB/TrEMBL
  Interferon_reg_factor-3 UniProtKB/TrEMBL
  SMAD_dom-like UniProtKB/TrEMBL
  SMAD_FHA_domain UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
KEGG Report rno:305896 UniProtKB/TrEMBL
MGC_CLONE MGC:95006 IMAGE-MGC_LOAD
NCBI Gene 305896 ENTREZGENE
PANTHER INTERFERON REGULATORY FACTOR UniProtKB/TrEMBL
  INTERFERON REGULATORY FACTOR 9 UniProtKB/TrEMBL
Pfam IRF UniProtKB/TrEMBL
  IRF-3 UniProtKB/TrEMBL
PhenoGen Irf9 PhenoGen
PRINTS INTFRNREGFCT UniProtKB/TrEMBL
PROSITE IRF_1 UniProtKB/TrEMBL
  IRF_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000019478 RatGTEx
SMART IRF UniProtKB/TrEMBL
  IRF-3 UniProtKB/TrEMBL
Superfamily-SCOP SMAD_FHA UniProtKB/TrEMBL
  SSF46785 UniProtKB/TrEMBL
UniProt A0A8I5ZQE9 ENTREZGENE, UniProtKB/TrEMBL
  A6KH21 ENTREZGENE, UniProtKB/TrEMBL
  G3V8J4 ENTREZGENE, UniProtKB/TrEMBL
  Q68FP4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-04 Irf9  interferon regulatory factor 9  Isgf3g  interferon dependent positive acting transcription factor 3 gamma  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Isgf3g  interferon dependent positive acting transcription factor 3 gamma  Isgf3g_predicted  interferon dependent positive acting transcription factor 3 gamma (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Isgf3g_predicted  interferon dependent positive acting transcription factor 3 gamma (predicted)      Symbol and Name status set to approved 70820 APPROVED