Human Gene ILF3 (ENST00000588657.6_7) from GENCODE V45lift37
Description: Homo sapiens interleukin enhancer binding factor 3 (ILF3), transcript variant 4, mRNA. (from RefSeq NM_017620) RefSeq Summary (NM_017620): This gene encodes a double-stranded RNA (dsRNA) binding protein that complexes with other proteins, dsRNAs, small noncoding RNAs, and mRNAs to regulate gene expression and stabilize mRNAs. This protein (NF90, ILF3) forms a heterodimer with a 45 kDa transcription factor (NF45, ILF2) required for T-cell expression of interleukin 2. This complex has been shown to affect the redistribution of nuclear mRNA to the cytoplasm. Knockdown of NF45 or NF90 protein retards cell growth, possibly by inhibition of mRNA stabilization. In contrast, an isoform (NF110) of this gene that is predominantly restricted to the nucleus has only minor effects on cell growth when its levels are reduced. Alternative splicing results in multiple transcript variants encoding distinct isoforms.[provided by RefSeq, Dec 2014]. Gencode Transcript: ENST00000588657.6_7 Gencode Gene: ENSG00000129351.18_17 Transcript (Including UTRs) Position: hg19 chr19:10,765,022-10,803,076 Size: 38,055 Total Exon Count: 20 Strand: + Coding Region Position: hg19 chr19:10,781,282-10,799,988 Size: 18,707 Coding Exon Count: 19
ID:ILF3_HUMAN DESCRIPTION: RecName: Full=Interleukin enhancer-binding factor 3; AltName: Full=Double-stranded RNA-binding protein 76; Short=DRBP76; AltName: Full=M-phase phosphoprotein 4; Short=MPP4; AltName: Full=Nuclear factor associated with dsRNA; Short=NFAR; AltName: Full=Nuclear factor of activated T-cells 90 kDa; Short=NF-AT-90; AltName: Full=Translational control protein 80; Short=TCP80; FUNCTION: RNA-binding protein that plays an essential role in the biogenesis of circular RNAs (circRNAs) which are produced by back- splicing circularization of pre-mRNAs. Within the nucleus, promotes circRNAs processing by stabilizing the regulatory elements residing in the flanking introns of the circularized exons. Plays thereby a role in the back-splicing of a subset of circRNAs (PubMed:28625552). As a consequence, participates in a wide range of transcriptional and post- transcriptional processes. Binds to poly-U elements and AU-rich elements (AREs) in the 3'-UTR of target mRNAs (PubMed:14731398). Upon viral infection, ILF3 accumulates in the cytoplasm and participates in the innate antiviral response (PubMed:21123651, PubMed:34110282). Mechanistically, ILF3 becomes phosphorylated and activated by the double-stranded RNA-activated protein kinase/PKR which releases ILF3 from cellular mature circRNAs. In turn, unbound ILF3 molecules are able to interact with and thus inhibit viral mRNAs (PubMed:21123651, PubMed:28625552). FUNCTION: (Microbial infection) Plays a positive role in HIV-1 virus production by binding to and thereby stabilizing HIV-1 RNA, together with ILF3. SUBUNIT: Identified in a IGF2BP1-dependent mRNP granule complex containing untranslated mRNAs. Interacts with FUS and SMN. Interacts (via C-terminus) with PRMT1. Forms a complex with ILF2. Can also bind to PRKDC/XRCC7: this may stabilize the interaction of PRKDC/XRCC7 and the heterodimeric complex of XRCC6/KU70 and XRCC5/KU80. Forms a heteromeric complex with ZNF346 and ILF3. Found in a nuclear export complex with XPO5, ILF3, Ran and double-stranded RNA or double-stranded minihelix VA1 RNA. Found in a nuclear export complex with XPO5, RAN, ILF3, ZNF346 and double-stranded RNA. Interacts with XPO5 and ZNF346. Forms a complex with ILF2, YLPM1, KHDRBS1, RBMX, NCOA5 and PPP1CA. Interacts with AGO1 and AGO2. Interacts with DHX36; this interaction occurs in a RNA-dependent manner (PubMed:14731398). Interacts with ELAVL1; this interaction occurs in a RNA-dependent manner (PubMed:14731398). Interacts with HAVCR2; this interaction promotes ILF3 ubiquitination and subsequent degradation (PubMed:34110282). INTERACTION: Q12906; P14866-1: HNRNPL; NbExp=2; IntAct=EBI-78756, EBI-16071645; Q12906; Q99873: PRMT1; NbExp=2; IntAct=EBI-78756, EBI-78738; Q12906; P08325: M; Xeno; NbExp=2; IntAct=EBI-78756, EBI-15693250; Q12906; P03496: NS; Xeno; NbExp=3; IntAct=EBI-78756, EBI-2547442; Q12906; Q05127: VP35; Xeno; NbExp=6; IntAct=EBI-78756, EBI-6148294; Q12906-6; Q13148: TARDBP; NbExp=6; IntAct=EBI-12904528, EBI-372899; Q12906-6; A5D8V6: VPS37C; NbExp=3; IntAct=EBI-12904528, EBI-2559305; SUBCELLULAR LOCATION: Nucleus, nucleolus Cytoplasm Nucleus te=Localizes in the cytoplasm in response to viral infection. The unphosphorylated form is retained in the nucleus by ILF2. Phosphorylation at Thr-188 and Thr-315 causes the dissociation of ILF2 from the ILF2-ILF3 complex resulting in a cytoplasmic sequestration of ILF3. Localized in cytoplasmic mRNP granules containing untranslated mRNAs. TISSUE SPECIFICITY: Ubiquitous. PTM: Phosphorylated at Thr-188 and Thr-315 by PKR in response to certain RNA viruses. This phosphorylation results in the dissociation of ILF2 from the ILF2-ILF3 complex resulting in a cytoplasmic sequestration of ILF3 where it can bind to viral RNAs and impede viral replication. PTM: Methylated by protein arginine N-methyltransferase 1. PTM: Ubiquitinated at Lys-297 in a TRIM47-dependent manner; this 'Lys- 48'-linked ubiquitination promotes ILF3 degradation. MISCELLANEOUS: [Isoform 3]: Dubious isoform produced through aberrant splice sites. SEQUENCE CAUTION: Sequence=AAA20994.1; Type=Miscellaneous discrepancy; Note=Sequencing errors.; Evidence=; Sequence=AAH48314.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence=;
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.
ModBase Predicted Comparative 3D Structure on Q12906
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Gene Ontology (GO) Annotations with Structured Vocabulary
Sequence and Links to Tools and Databases 
Common Gene Haplotype Alleles 
