Atlas of Genetics and Cytogenetics in Oncology and Haematology


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IRF3 (interferon regulatory factor 3)

Identity

Other aliasIIAE7
HGNC (Hugo) IRF3
LocusID (NCBI) 3661
Atlas_Id 46567
Location 1q42.3  [Link to chromosome band 1q42]
Location_base_pair Starts at 49659569 and ends at 49665875 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
AASDH (4q12) / IRF3 (19q13.33)BCAT2 (19q13.33) / IRF3 (19q13.33)IRF3 (19q13.33) / GNAS (20q13.32)
IRF3 (19q13.33) / MALAT1 (11q13.1)IRF3 (19q13.33) / SF3A2 (19p13.3)RPS6KA3 (Xp22.12) / IRF3 (19q13.33)
SPEN (1p36.21) / IRF3 (19q13.33)ZNF814 (19q13.43) / IRF3 (19q13.33)BCAT2 19q13.33 / IRF3 19q13.33
ZNF814 19q13.43 / IRF3 19q13.33

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 2 ]
  BCAT2/IRF3 (19q13)
ZNF814/IRF3 (19q13)


External links

Nomenclature
HGNC (Hugo)IRF3   6118
Cards
Entrez_Gene (NCBI)IRF3  3661  interferon regulatory factor 3
AliasesIIAE7
GeneCards (Weizmann)IRF3
Ensembl hg19 (Hinxton)ENSG00000126456 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000126456 [Gene_View]  ENSG00000126456 [Sequence]  chr19:49659569-49665875 [Contig_View]  IRF3 [Vega]
ICGC DataPortalENSG00000126456
TCGA cBioPortalIRF3
AceView (NCBI)IRF3
Genatlas (Paris)IRF3
WikiGenes3661
SOURCE (Princeton)IRF3
Genetics Home Reference (NIH)IRF3
Genomic and cartography
GoldenPath hg38 (UCSC)IRF3  -     chr19:49659569-49665875 -  1q42.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)IRF3  -     1q42.3   [Description]    (hg19-Feb_2009)
EnsemblIRF3 - 1q42.3 [CytoView hg19]  IRF3 - 1q42.3 [CytoView hg38]
Mapping of homologs : NCBIIRF3 [Mapview hg19]  IRF3 [Mapview hg38]
OMIM603734   616532   
Gene and transcription
Genbank (Entrez)AA568913 AB102884 AB102886 AB102887 AK057577
RefSeq transcript (Entrez)NM_001197122 NM_001197123 NM_001197124 NM_001197125 NM_001197126 NM_001197127 NM_001197128 NM_001571
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)IRF3
Cluster EST : UnigeneHs.731922 [ NCBI ]
CGAP (NCI)Hs.731922
Alternative Splicing GalleryENSG00000126456
Gene ExpressionIRF3 [ NCBI-GEO ]   IRF3 [ EBI - ARRAY_EXPRESS ]   IRF3 [ SEEK ]   IRF3 [ MEM ]
Gene Expression Viewer (FireBrowse)IRF3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3661
GTEX Portal (Tissue expression)IRF3
Human Protein AtlasENSG00000126456-IRF3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ14653   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ14653  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ14653
Splice isoforms : SwissVarQ14653
PhosPhoSitePlusQ14653
Domaine pattern : Prosite (Expaxy)IRF_1 (PS00601)    IRF_2 (PS51507)   
Domains : Interpro (EBI)Interferon_reg_fac_CS    Interferon_reg_fact_DNA-bd_dom    Interferon_reg_factor-3    SMAD-like_dom_sf    SMAD_FHA_dom_sf    WH-like_DNA-bd_sf    WH_DNA-bd_sf   
Domain families : Pfam (Sanger)IRF (PF00605)    IRF-3 (PF10401)   
Domain families : Pfam (NCBI)pfam00605    pfam10401   
Domain families : Smart (EMBL)IRF (SM00348)  IRF-3 (SM01243)  
Conserved Domain (NCBI)IRF3
DMDM Disease mutations3661
Blocks (Seattle)IRF3
PDB (SRS)1J2F    1QWT    1T2K    1ZOQ    2O61    2O6G    2PI0    3A77    3QU6    5JEJ    5JEK    5JEL    5JEM    5JEO    5JER   
PDB (PDBSum)1J2F    1QWT    1T2K    1ZOQ    2O61    2O6G    2PI0    3A77    3QU6    5JEJ    5JEK    5JEL    5JEM    5JEO    5JER   
PDB (IMB)1J2F    1QWT    1T2K    1ZOQ    2O61    2O6G    2PI0    3A77    3QU6    5JEJ    5JEK    5JEL    5JEM    5JEO    5JER   
PDB (RSDB)1J2F    1QWT    1T2K    1ZOQ    2O61    2O6G    2PI0    3A77    3QU6    5JEJ    5JEK    5JEL    5JEM    5JEO    5JER   
Structural Biology KnowledgeBase1J2F    1QWT    1T2K    1ZOQ    2O61    2O6G    2PI0    3A77    3QU6    5JEJ    5JEK    5JEL    5JEM    5JEO    5JER   
SCOP (Structural Classification of Proteins)1J2F    1QWT    1T2K    1ZOQ    2O61    2O6G    2PI0    3A77    3QU6    5JEJ    5JEK    5JEL    5JEM    5JEO    5JER   
CATH (Classification of proteins structures)1J2F    1QWT    1T2K    1ZOQ    2O61    2O6G    2PI0    3A77    3QU6    5JEJ    5JEK    5JEL    5JEM    5JEO    5JER   
SuperfamilyQ14653
Human Protein Atlas [tissue]ENSG00000126456-IRF3 [tissue]
Peptide AtlasQ14653
HPRD04769
IPIIPI00291901   IPI00737251   IPI00646709   IPI00976695   IPI01014291   IPI00983179   IPI00941119   
Protein Interaction databases
DIP (DOE-UCLA)Q14653
IntAct (EBI)Q14653
FunCoupENSG00000126456
BioGRIDIRF3
STRING (EMBL)IRF3
ZODIACIRF3
Ontologies - Pathways
QuickGOQ14653
Ontology : AmiGOnegative regulation of transcription by RNA polymerase II  RNA polymerase II proximal promoter sequence-specific DNA binding  RNA polymerase II transcription factor activity, sequence-specific DNA binding  RNA polymerase II transcription factor activity, sequence-specific DNA binding  RNA polymerase II transcription factor activity, sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II proximal promoter sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II proximal promoter sequence-specific DNA binding  transcriptional repressor activity, RNA polymerase II proximal promoter sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific DNA binding  DNA binding  transcription coregulator activity  protein binding  nucleus  nucleoplasm  cytoplasm  cytosol  cytosol  transcription by RNA polymerase II  apoptotic process  cellular response to DNA damage stimulus  viral process  protein domain specific binding  lipopolysaccharide-mediated signaling pathway  regulation of type I interferon production  negative regulation of type I interferon production  positive regulation of type I interferon production  positive regulation of interferon-alpha production  positive regulation of interferon-beta production  positive regulation of interferon-beta production  TRIF-dependent toll-like receptor signaling pathway  MDA-5 signaling pathway  identical protein binding  protein homodimerization activity  positive regulation of I-kappaB kinase/NF-kappaB signaling  response to exogenous dsRNA  sequence-specific DNA binding  type I interferon biosynthetic process  negative regulation of interferon-beta biosynthetic process  positive regulation of transcription by RNA polymerase II  positive regulation of transcription by RNA polymerase II  negative regulation of defense response to virus by host  positive regulation of cytokine secretion  defense response to virus  interferon-gamma-mediated signaling pathway  type I interferon signaling pathway  positive regulation of type I interferon-mediated signaling pathway  cellular response to dsRNA  macrophage apoptotic process  programmed necrotic cell death  
Ontology : EGO-EBInegative regulation of transcription by RNA polymerase II  RNA polymerase II proximal promoter sequence-specific DNA binding  RNA polymerase II transcription factor activity, sequence-specific DNA binding  RNA polymerase II transcription factor activity, sequence-specific DNA binding  RNA polymerase II transcription factor activity, sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II proximal promoter sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II proximal promoter sequence-specific DNA binding  transcriptional repressor activity, RNA polymerase II proximal promoter sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific DNA binding  DNA binding  transcription coregulator activity  protein binding  nucleus  nucleoplasm  cytoplasm  cytosol  cytosol  transcription by RNA polymerase II  apoptotic process  cellular response to DNA damage stimulus  viral process  protein domain specific binding  lipopolysaccharide-mediated signaling pathway  regulation of type I interferon production  negative regulation of type I interferon production  positive regulation of type I interferon production  positive regulation of interferon-alpha production  positive regulation of interferon-beta production  positive regulation of interferon-beta production  TRIF-dependent toll-like receptor signaling pathway  MDA-5 signaling pathway  identical protein binding  protein homodimerization activity  positive regulation of I-kappaB kinase/NF-kappaB signaling  response to exogenous dsRNA  sequence-specific DNA binding  type I interferon biosynthetic process  negative regulation of interferon-beta biosynthetic process  positive regulation of transcription by RNA polymerase II  positive regulation of transcription by RNA polymerase II  negative regulation of defense response to virus by host  positive regulation of cytokine secretion  defense response to virus  interferon-gamma-mediated signaling pathway  type I interferon signaling pathway  positive regulation of type I interferon-mediated signaling pathway  cellular response to dsRNA  macrophage apoptotic process  programmed necrotic cell death  
Pathways : KEGG   
NDEx NetworkIRF3
Atlas of Cancer Signalling NetworkIRF3
Wikipedia pathwaysIRF3
Orthology - Evolution
OrthoDB3661
GeneTree (enSembl)ENSG00000126456
Phylogenetic Trees/Animal Genes : TreeFamIRF3
HOVERGENQ14653
HOGENOMQ14653
Homologs : HomoloGeneIRF3
Homology/Alignments : Family Browser (UCSC)IRF3
Gene fusions - Rearrangements
Fusion : MitelmanBCAT2/IRF3 [19q13.33/19q13.33]  [t(19;19)(q13;q13)]  
Fusion : MitelmanZNF814/IRF3 [19q13.43/19q13.33]  [t(19;19)(q13;q13)]  
Fusion PortalBCAT2 19q13.33 IRF3 19q13.33 LGG
Fusion PortalZNF814 19q13.43 IRF3 19q13.33 BRCA
Fusion : QuiverIRF3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerIRF3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)IRF3
dbVarIRF3
ClinVarIRF3
1000_GenomesIRF3 
Exome Variant ServerIRF3
ExAC (Exome Aggregation Consortium)ENSG00000126456
GNOMAD BrowserENSG00000126456
Varsome BrowserIRF3
Genetic variants : HAPMAP3661
Genomic Variants (DGV)IRF3 [DGVbeta]
DECIPHERIRF3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisIRF3 
Mutations
ICGC Data PortalIRF3 
TCGA Data PortalIRF3 
Broad Tumor PortalIRF3
OASIS PortalIRF3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICIRF3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDIRF3
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch IRF3
DgiDB (Drug Gene Interaction Database)IRF3
DoCM (Curated mutations)IRF3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)IRF3 (select a term)
intoGenIRF3
Cancer3DIRF3(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603734    616532   
Orphanet
DisGeNETIRF3
MedgenIRF3
Genetic Testing Registry IRF3
NextProtQ14653 [Medical]
TSGene3661
GENETestsIRF3
Target ValidationIRF3
Huge Navigator IRF3 [HugePedia]
snp3D : Map Gene to Disease3661
BioCentury BCIQIRF3
ClinGenIRF3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3661
Chemical/Pharm GKB GenePA29917
Clinical trialIRF3
Miscellaneous
canSAR (ICR)IRF3 (select the gene name)
Probes
Litterature
PubMed376 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineIRF3
EVEXIRF3
GoPubMedIRF3
iHOPIRF3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Aug 16 11:08:41 CEST 2018

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