Human Gene IRF7 (ENST00000525445.6_11) from GENCODE V47lift37
  Description: interferon regulatory factor 7, transcript variant a (from RefSeq NM_001572.5)
Gencode Transcript: ENST00000525445.6_11
Gencode Gene: ENSG00000185507.21_18
Transcript (Including UTRs)
   Position: hg19 chr11:612,555-615,950 Size: 3,396 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr11:612,645-615,364 Size: 2,720 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:612,555-615,950)mRNA (may differ from genome)Protein (503 aa)
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UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: IRF7_HUMAN
DESCRIPTION: RecName: Full=Interferon regulatory factor 7; Short=IRF-7;
FUNCTION: Key transcriptional regulator of type I interferon (IFN)-dependent immune responses and plays a critical role in the innate immune response against DNA and RNA viruses. Regulates the transcription of type I IFN genes (IFN-alpha and IFN-beta) and IFN-stimulated genes (ISG) by binding to an interferon-stimulated response element (ISRE) in their promoters. Can efficiently activate both the IFN-beta (IFNB) and the IFN-alpha (IFNA) genes and mediate their induction via both the virus-activated, MyD88- independent pathway and the TLR-activated, MyD88-dependent pathway. Required during both the early and late phases of the IFN gene induction but is more critical for the late than for the early phase. Exists in an inactive form in the cytoplasm of uninfected cells and following viral infection, double-stranded RNA (dsRNA), or toll-like receptor (TLR) signaling, becomes phosphorylated by IKBKE and TBK1 kinases. This induces a conformational change, leading to its dimerization and nuclear localization where along with other coactivators it can activate transcription of the type I IFN and ISG genes. Can also play a role in regulating adaptive immune responses by inducing PSMB9/LMP2 expression, either directly or through induction of IRF1. Binds to the Q promoter (Qp) of EBV nuclear antigen 1 a (EBNA1) and may play a role in the regulation of EBV latency. Can activate distinct gene expression programs in macrophages and regulate the anti-tumor properties of primary macrophages.
ENZYME REGULATION: In the absence of viral infection, maintained as a monomer in an autoinhibited state and phosphorylation disrupts this autoinhibition leading to the liberation of the DNA- binding and dimerization activities and its nuclear localization where it can activate type I IFN and ISG genes.
SUBUNIT: Monomer. Homodimer; phosphorylation-induced. Heterodimer with IRF3. Interacts with TICAM1 and TICAM2. Interacts with rotavirus A NSP1; this interaction leads to the proteasome- dependent degradation of IRF7. Interacts with Epstein-Barr virus LF2. Interacts with MYD88 AND TRAF6.
INTERACTION: O00170:AIP; NbExp=2; IntAct=EBI-968267, EBI-704197; P10398:ARAF; NbExp=2; IntAct=EBI-968267, EBI-365961; Q96A33:CCDC47; NbExp=2; IntAct=EBI-968267, EBI-720151; P51617:IRAK1; NbExp=2; IntAct=EBI-968267, EBI-358664; O94822:LTN1; NbExp=2; IntAct=EBI-968267, EBI-1044684; Q9ULE6:PALD; NbExp=2; IntAct=EBI-968267, EBI-3957166; Q86UE8:TLK2; NbExp=2; IntAct=EBI-968267, EBI-1047967; Q9BVS5:TRMT61B; NbExp=2; IntAct=EBI-968267, EBI-3197877;
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Note=The phosphorylated and active form accumulates selectively in the nucleus.
TISSUE SPECIFICITY: Expressed predominantly in spleen, thymus and peripheral blood leukocytes.
INDUCTION: By type I interferon (IFN) and viruses.
PTM: Acetylation inhibits its DNA-binding ability and activity.
PTM: In response to a viral infection, phosphorylated on Ser-477 and Ser-479 by TBK1 and IKBKE1. Phosphorylation, and subsequent activation is inhibited by vaccinia virus protein E3. In TLR7- and TLR9-mediated signaling pathway, phosphorylated by IRAK1.
PTM: TRAF6-mediated ubiquitination is required for IRF7 activation (By similarity).
PTM: Sumoylated by TRIM28, which inhibits its transactivation activity.
SIMILARITY: Belongs to the IRF family.
SIMILARITY: Contains 1 IRF tryptophan pentad repeat DNA-binding domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: IRF7
Diseases sorted by gene-association score: immunodeficiency 39* (1278), venezuelan equine encephalitis (16), vaccinia (15), influenza (13), hepatitis c (13), yellow fever (13), avian influenza (11), kaposi sarcoma (10), pediatric lymphoma (9), viral infectious disease (8), eczema herpeticum (8), hepatitis c virus (3)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 85.20 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 538.87 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -131.50321-0.410 Picture PostScript Text
3' UTR -18.8090-0.209 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR019817 - Interferon_reg_fac_CS
IPR001346 - Interferon_reg_fact_DNA-bd_dom
IPR019471 - Interferon_reg_factor-3
IPR017855 - SMAD_dom-like
IPR008984 - SMAD_FHA_domain
IPR011991 - WHTH_trsnscrt_rep_DNA-bd

Pfam Domains:
PF00605 - Interferon regulatory factor transcription factor
PF10401 - Interferon-regulatory factor 3

SCOP Domains:
46785 - "Winged helix" DNA-binding domain
49879 - SMAD/FHA domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2O61 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q92985
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000979 RNA polymerase II core promoter sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0000982 transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding
GO:0044212 transcription regulatory region DNA binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0002376 immune system process
GO:0002819 regulation of adaptive immune response
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0006974 cellular response to DNA damage stimulus
GO:0009615 response to virus
GO:0016032 viral process
GO:0016064 immunoglobulin mediated immune response
GO:0019043 establishment of viral latency
GO:0032479 regulation of type I interferon production
GO:0032481 positive regulation of type I interferon production
GO:0032607 interferon-alpha production
GO:0032608 interferon-beta production
GO:0032727 positive regulation of interferon-alpha production
GO:0032728 positive regulation of interferon-beta production
GO:0034124 regulation of MyD88-dependent toll-like receptor signaling pathway
GO:0034127 regulation of MyD88-independent toll-like receptor signaling pathway
GO:0035666 TRIF-dependent toll-like receptor signaling pathway
GO:0039530 MDA-5 signaling pathway
GO:0045087 innate immune response
GO:0045351 type I interferon biosynthetic process
GO:0045655 regulation of monocyte differentiation
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0050776 regulation of immune response
GO:0051607 defense response to virus
GO:0060333 interferon-gamma-mediated signaling pathway
GO:0060337 type I interferon signaling pathway
GO:0060340 positive regulation of type I interferon-mediated signaling pathway
GO:2000110 negative regulation of macrophage apoptotic process

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0010008 endosome membrane


-  Descriptions from all associated GenBank mRNAs
  LF207967 - JP 2014500723-A/15470: Polycomb-Associated Non-Coding RNAs.
KC477210 - Homo sapiens interferon regulatory factor 7 transcript variant e (IRF7) mRNA, complete cds, alternatively spliced.
U53831 - Homo sapiens interferon regulatory factor 7B mRNA, complete cds.
U53830 - Homo sapiens interferon regulatory factor 7A mRNA, complete cds.
AK303752 - Homo sapiens cDNA FLJ61529 complete cds, highly similar to Interferon regulatory factor 7.
U53832 - Homo sapiens interferon regulatory factor 7C mRNA, complete cds.
AF076494 - Homo sapiens interferon regulatory factor 7H (IRF7) mRNA, alternatively spliced, complete cds.
BC136555 - Homo sapiens interferon regulatory factor 7, mRNA (cDNA clone MGC:168168 IMAGE:9020545), complete cds.
BC144242 - Homo sapiens cDNA clone IMAGE:9052762, with apparent retained intron.
U73036 - Human interferon regulatory factor 7 (humirf7) mRNA, complete cds.
KX150851 - Homo sapiens cell-line HEK293T interferon regulatory factor 7G isoform mRNA, complete cds.
AB463790 - Synthetic construct DNA, clone: pF1KB9738, Homo sapiens IRF7 gene for interferon regulatory factor 7, without stop codon, in Flexi system.
JD068367 - Sequence 49391 from Patent EP1572962.
JD186838 - Sequence 167862 from Patent EP1572962.
JD182096 - Sequence 163120 from Patent EP1572962.
JD206615 - Sequence 187639 from Patent EP1572962.
JD187487 - Sequence 168511 from Patent EP1572962.
JD404690 - Sequence 385714 from Patent EP1572962.
JD343552 - Sequence 324576 from Patent EP1572962.
LF370559 - JP 2014500723-A/178062: Polycomb-Associated Non-Coding RNAs.
JD213730 - Sequence 194754 from Patent EP1572962.
JD483306 - Sequence 464330 from Patent EP1572962.
JD051024 - Sequence 32048 from Patent EP1572962.
JD423999 - Sequence 405023 from Patent EP1572962.
JD191431 - Sequence 172455 from Patent EP1572962.
JD104568 - Sequence 85592 from Patent EP1572962.
JD115805 - Sequence 96829 from Patent EP1572962.
JD190298 - Sequence 171322 from Patent EP1572962.
JD417010 - Sequence 398034 from Patent EP1572962.
JD341641 - Sequence 322665 from Patent EP1572962.
JD435655 - Sequence 416679 from Patent EP1572962.
JD439087 - Sequence 420111 from Patent EP1572962.
JD329374 - Sequence 310398 from Patent EP1572962.
JD098020 - Sequence 79044 from Patent EP1572962.
JD114928 - Sequence 95952 from Patent EP1572962.
LF370560 - JP 2014500723-A/178063: Polycomb-Associated Non-Coding RNAs.
JD199942 - Sequence 180966 from Patent EP1572962.
JD129659 - Sequence 110683 from Patent EP1572962.
JD056273 - Sequence 37297 from Patent EP1572962.
JD307377 - Sequence 288401 from Patent EP1572962.
JD483440 - Sequence 464464 from Patent EP1572962.
LF370562 - JP 2014500723-A/178065: Polycomb-Associated Non-Coding RNAs.
LF370564 - JP 2014500723-A/178067: Polycomb-Associated Non-Coding RNAs.
JD469924 - Sequence 450948 from Patent EP1572962.
JD390734 - Sequence 371758 from Patent EP1572962.
JD076097 - Sequence 57121 from Patent EP1572962.
MA606136 - JP 2018138019-A/178062: Polycomb-Associated Non-Coding RNAs.
MA606137 - JP 2018138019-A/178063: Polycomb-Associated Non-Coding RNAs.
MA606139 - JP 2018138019-A/178065: Polycomb-Associated Non-Coding RNAs.
MA606141 - JP 2018138019-A/178067: Polycomb-Associated Non-Coding RNAs.
MA443544 - JP 2018138019-A/15470: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_pcafpathway - The information-processing pathway at the IFN-beta enhancer

Reactome (by CSHL, EBI, and GO)

Protein Q92985 (Reactome details) participates in the following event(s):

R-HSA-933538 Recruitment of IRF7 to TRAF6
R-HSA-975188 TRAF6 interacts with IRF7 upon TLR7/8 or 9 activation
R-HSA-933533 Dimerization of p-IRF7
R-HSA-933525 Phosphorylation and release of IRF7
R-HSA-975106 Phosphorylation and release of IRF7 upon TLR7/8 or 9 activation
R-HSA-933536 p-IRF7 dimer interacts with coactivator CBP/p300
R-HSA-933531 Translocation of p-IRF7:p-IRF7 to nucleus
R-HSA-1028816 Translocation of phosphorylated IRF3,IRF7 dimers into nucleus
R-HSA-1028820 Formation of VAF (virus-activated factor) complex
R-HSA-975118 TRAF6 ubiquitinqtes IRF7 in a K63-dependent manner following TLR7/8 or 9 stimulation
R-HSA-166271 IRF3/IRF7 recruitment to p-TBK1/p-IKK epsilon bound to the activated TLR4
R-HSA-918232 Recruitment of IRF3,IRF7
R-HSA-9013979 IRF3/IRF7 recruitment to p-TBK1/p-IKK epsilon bound to the activated TLR3
R-HSA-1028821 Dimerization of Phospho IRF3 or phospho IRF7
R-HSA-168933 Dimerization of phosphorylated IRF3/IRF7
R-HSA-166245 Phosphorylation of IRF-3/IRF7 and their release from the activated TLR complex
R-HSA-918229 Phosphorylation and release of IRF3/IRF7
R-HSA-9013978 Phosphorylation of IRF-3/IRF7 and their release from the activated TLR3 complex
R-HSA-177671 Dimerized phospho-IRF3/IRF7 is transported to the nucleus
R-HSA-1028819 VAF/pIRF7:CBP/p300 binds the promoters of type-I IFN genes
R-HSA-933541 TRAF6 mediated IRF7 activation
R-HSA-975110 TRAF6 mediated IRF7 activation in TLR7/8 or 9 signaling
R-HSA-3134963 DEx/H-box helicases activate type I IFN and inflammatory cytokines production
R-HSA-918233 TRAF3-dependent IRF activation pathway
R-HSA-936964 Activation of IRF3/IRF7 mediated by TBK1/IKK epsilon
R-HSA-9013973 TICAM1-dependent activation of IRF3/IRF7
R-HSA-909733 Interferon alpha/beta signaling
R-HSA-877300 Interferon gamma signaling
R-HSA-168928 DDX58/IFIH1-mediated induction of interferon-alpha/beta
R-HSA-975155 MyD88 dependent cascade initiated on endosome
R-HSA-1834949 Cytosolic sensors of pathogen-associated DNA
R-HSA-937061 TRIF(TICAM1)-mediated TLR4 signaling
R-HSA-168164 Toll Like Receptor 3 (TLR3) Cascade
R-HSA-913531 Interferon Signaling
R-HSA-168249 Innate Immune System
R-HSA-168138 Toll Like Receptor 9 (TLR9) Cascade
R-HSA-168181 Toll Like Receptor 7/8 (TLR7/8) Cascade
R-HSA-166166 MyD88-independent TLR4 cascade
R-HSA-168898 Toll-Like Receptors Cascades
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168256 Immune System
R-HSA-166016 Toll Like Receptor 4 (TLR4) Cascade

-  Other Names for This Gene
  Alternate Gene Symbols: B9EGL3, ENST00000525445.1, ENST00000525445.2, ENST00000525445.3, ENST00000525445.4, ENST00000525445.5, IRF7_HUMAN, NM_001572, O00331, O00332, O00333, O75924, Q92985, Q9UE79, uc324apn.1, uc324apn.2
UCSC ID: ENST00000525445.6_11
RefSeq Accession: NM_001572.5
Protein: Q92985 (aka IRF7_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.