ArticleFASEB journal : official publication of the Federation of American Societies for Experimental Biology2019
The RNA-binding protein ILF3 binds to transposable element sequences in SINEUP lncRNAs.
Article in FASEB journal : official publication of the Federation of American Societies for Experimental Biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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18 citing papers in PubMed, 29 citations in OpenAlex.
- CDH3-AS1 antisense RNA enhances P-cadherin translation and acts as a tumor suppressor in melanoma.Cell reports · 2025Article
- A non-hypothesis-driven practical laboratory activity on functional metagenomics: "fishing" protein-coding DNA sequences from microbiomes.Frontiers in bioengineering and biotechnology · 2025Article
- Skipper analysis of eCLIP datasets enables sensitive detection of constrained translation factor binding sites.Cell genomics · 2023Article
- SINEUP non-coding RNA activity depends on specific N6-methyladenosine nucleotides.Molecular therapy. Nucleic acids · 2023Article
- Regulated dicing of pre-mir-144 via reshaping of its terminal loop.Nucleic acids research · 2022Article
- RNA-binding proteins and their role in kidney disease.Nature reviews. Nephrology · 2022Review
- ARNA biology · 2022Article
- Bioinformatics Approaches for Determining the Functional Impact of Repetitive Elements on Non-coding RNAs.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Natural antisense transcripts as drug targets.Frontiers in molecular biosciences · 2022Review
- SINEUPs: a novel toolbox for RNA therapeutics.Essays in biochemistry · 2021Review
- Implication of repeat insertion domains in the trans-activity of the long non-coding RNA ANRIL.Nucleic acids research · 2021Article
- Retrotransposons as Drivers of Mammalian Brain Evolution.Life (Basel, Switzerland) · 2021Review
- Transposable element-derived sequences in vertebrate development.Mobile DNA · 2021Review
- LncRNAs as Therapeutic Targets and Potential Biomarkers for Lipid-Related Diseases.Frontiers in pharmacology · 2021Review
- Long Non-Coding RNA and mRNA Expression Analysis in Liver of Mice WithFrontiers in cellular and infection microbiology · 2021Article
- SINEUP long non-coding RNA acts via PTBP1 and HNRNPK to promote translational initiation assemblies.Nucleic acids research · 2020Article
- An NMR-based approach reveals the core structure of the functional domain of SINEUP lncRNAs.Nucleic acids research · 2020Article
- InteractomeSeq: a web server for the identification and profiling of domains and epitopes from phage display and next generation sequencing data.Nucleic acids research · 2020Article
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Authors and funding
14 authors at 5 institutions in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Transposable elements (TEs) compose about half of the mammalian genome and, as embedded sequences, up to 40% of long noncoding RNA (lncRNA) transcripts. Embedded TEs may represent functional domains within lncRNAs, providing a structured RNA platform for protein interaction. Here we show the interactome profile of the mouse inverted short interspersed nuclear element (SINE) of subfamily B2 (invSINEB2) alone and embedded in antisense (AS) ubiquitin C-terminal hydrolase L1 (Uchl1), an lncRNA that is AS to Uchl1 gene. AS Uchl1 is the representative member of a functional class of AS lncRNAs, named SINEUPs, in which the invSINEB2 acts as effector domain (ED)-enhancing translation of sense protein-coding mRNAs. By using RNA-interacting domainome technology, we identify the IL enhancer-binding factor 3 (ILF3) as a protein partner of AS Uchl1 RNA. We determine that this interaction is mediated by the RNA-binding motif 2 of ILF3 and the invSINEB2. Furthermore, we show that ILF3 is able to bind a free right
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