Irf1 (interferon regulatory factor 1) - Rat Genome Database

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Gene: Irf1 (interferon regulatory factor 1) Ictidomys tridecemlineatus
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Symbol: Irf1
Name: interferon regulatory factor 1
RGD ID: 12647362
Description: ENCODES a protein that exhibits sequence-specific DNA binding (ortholog); INVOLVED IN canonical NF-kappaB signal transduction (ortholog); cellular response to exogenous dsRNA (ortholog); cellular response to interferon-beta (ortholog); PARTICIPATES IN interleukin-6 signaling pathway; Jak-Stat signaling pathway; nuclear factor kappa B signaling pathway; ASSOCIATED WITH allergic conjunctivitis (ortholog); asthma (ortholog); bacterial pneumonia (ortholog); FOUND IN chromatin (inferred); cytoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: interferon regulatory factor 1, transcript variant X1; interferon regulatory factor 1, transcript variant X2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
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 Ensembl
SpeTri2.0NW_0049366472,686,247 - 2,693,633 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component
chromatin  (IEA)
cytoplasm  (IEA)
nucleus  (IEA)

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
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 Ensembl
SpeTri2.0NW_0049366472,686,247 - 2,693,633 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IRF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385132,481,609 - 132,490,773 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5132,440,440 - 132,508,719 (-)Ensemblhg38GRCh38
GRCh375131,817,301 - 131,826,465 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365131,846,679 - 131,854,326 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm381153,770,014 - 53,778,374 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1153,770,014 - 53,778,374 (+)Ensemblmm10GRCm38
MGSCv371153,583,516 - 53,591,876 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361153,613,501 - 53,620,746 (+)NCBIMGSCv36mm8
Celera1158,349,840 - 58,358,199 (+)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1132.0NCBI
Irf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81038,417,935 - 38,424,946 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1038,417,148 - 38,424,947 (+)EnsemblGRCr8
mRatBN7.21037,917,155 - 37,924,166 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1037,916,670 - 37,924,166 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1042,609,084 - 42,616,097 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01042,099,164 - 42,106,177 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01037,602,877 - 37,609,890 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01039,109,530 - 39,116,532 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1039,109,522 - 39,116,531 (+)Ensemblrn6Rnor6.0
Rnor_5.01038,891,468 - 38,898,470 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41039,220,600 - 39,227,602 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1037,260,559 - 37,267,561 (+)NCBICelera
RGSC_v3.11039,229,846 - 39,236,848 (+)NCBI
RH 3.4 Map10405.3RGD
Cytogenetic Map10q22NCBI
Irf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554083,880,155 - 3,887,973 (-)Ensembl
ChiLan1.0NW_0049554083,882,282 - 3,887,965 (-)NCBIChiLan1.0ChiLan1.0
IRF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24127,800,658 - 127,808,444 (-)NCBINHGRI_mPanPan1-v2
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 (-)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1119,575,525 - 19,582,746 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01121,559,527 - 21,566,744 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_Cfam_GSD_1.0
IRF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2134,776,129 - 134,783,801 (-)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473339,596,565 - 39,603,428 (+)NCBIHetGla 1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSSTOT00000009861   ⟹   ENSSTOP00000008843
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049366472,686,414 - 2,693,636 (+)Ensembl
Ensembl Acc Id: ENSSTOT00000036063   ⟹   ENSSTOP00000029609
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049366472,687,736 - 2,691,373 (+)Ensembl
RefSeq Acc Id: XM_005335778   ⟹   XP_005335835
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024407213115,683,543 - 115,690,876 (+)NCBI
SpeTri2.0NW_0049366472,686,247 - 2,693,633 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021733591   ⟹   XP_021589266
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024407213115,684,091 - 115,690,876 (+)NCBI
SpeTri2.0NW_0049366472,686,882 - 2,693,633 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005335835 (Get FASTA)   NCBI Sequence Viewer  
  XP_021589266 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000008843.2
  ENSSTOP00000029609.1
GenBank Protein KAG3265524 (Get FASTA)   NCBI Sequence Viewer  
  KAG3265525 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005335835   ⟸   XM_005335778
- UniProtKB: I3MED4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021589266   ⟸   XM_021733591
- UniProtKB: I3MED4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSSTOP00000029609   ⟸   ENSSTOT00000036063
Ensembl Acc Id: ENSSTOP00000008843   ⟸   ENSSTOT00000009861
Protein Domains
IRF tryptophan pentad repeat


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000009857 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000009861.3 UniProtKB/TrEMBL
  ENSSTOT00000036063.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
InterPro Interferon_reg_fac_CS UniProtKB/TrEMBL
  Interferon_reg_fact_DNA-bd_dom UniProtKB/TrEMBL
  IRF1/IRF2 UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
KEGG Report iti:101974874 UniProtKB/TrEMBL
NCBI Gene Irf1 ENTREZGENE
PANTHER INTERFERON REGULATORY FACTOR UniProtKB/TrEMBL
  PTHR11949:SF3 UniProtKB/TrEMBL
Pfam IRF UniProtKB/TrEMBL
PIRSF IFN_RF1/2 UniProtKB/TrEMBL
PRINTS INTFRNREGFCT UniProtKB/TrEMBL
PROSITE IRF_1 UniProtKB/TrEMBL
  IRF_2 UniProtKB/TrEMBL
SMART IRF UniProtKB/TrEMBL
Superfamily-SCOP SSF46785 UniProtKB/TrEMBL
UniProt A0A287D7U7_ICTTR UniProtKB/TrEMBL
  I3MED4 ENTREZGENE, UniProtKB/TrEMBL