Literature DB >> 19959365

Role of RNA structure in regulating pre-mRNA splicing.

M Bryan Warf1, J Andrew Berglund.   

Abstract

Pre-mRNA splicing involves removing non-coding introns from RNA transcripts. It is carried out by the spliceosome, along with other auxiliary factors. In general, research in splicing has focused on the sequences within the pre-mRNA, without considering the structures that these sequences might form. We propose that the role of RNA structure deserves more consideration when thinking about splicing mechanisms. RNA structures can inhibit or aid binding of spliceosomal components to the pre-mRNA, or can increase splicing efficiency by bringing important sequences into close proximity. Recent reports have identified proteins and small molecules that can regulate splicing by modulating RNA structures, thereby expanding our knowledge of the mechanisms used to regulate splicing. Copyright 2009 Elsevier Ltd. All rights reserved.

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Year:  2009        PMID: 19959365      PMCID: PMC2834840          DOI: 10.1016/j.tibs.2009.10.004

Source DB:  PubMed          Journal:  Trends Biochem Sci        ISSN: 0968-0004            Impact factor:   13.807


  85 in total

1.  Splice site choice and splicing efficiency are positively influenced by pre-mRNA intramolecular base pairing in yeast.

Authors:  V Goguel; M Rosbash
Journal:  Cell       Date:  1993-03-26       Impact factor: 41.582

2.  Regulation of splicing at an intermediate step in the formation of the spliceosome.

Authors:  J Vilardell; J R Warner
Journal:  Genes Dev       Date:  1994-01       Impact factor: 11.361

3.  A native RNA secondary structure controls alternative splice-site selection and generates two human growth hormone isoforms.

Authors:  P A Estes; N E Cooke; S A Liebhaber
Journal:  J Biol Chem       Date:  1992-07-25       Impact factor: 5.157

4.  Scanning and competition between AGs are involved in 3' splice site selection in mammalian introns.

Authors:  C W Smith; T T Chu; B Nadal-Ginard
Journal:  Mol Cell Biol       Date:  1993-08       Impact factor: 4.272

5.  Short artificial hairpins sequester splicing signals and inhibit yeast pre-mRNA splicing.

Authors:  V Goguel; Y Wang; M Rosbash
Journal:  Mol Cell Biol       Date:  1993-11       Impact factor: 4.272

6.  beta-Tropomyosin pre-mRNA folding around a muscle-specific exon interferes with several steps of spliceosome assembly.

Authors:  P Sirand-Pugnet; P Durosay; B C Clouet d'Orval; E Brody; J Marie
Journal:  J Mol Biol       Date:  1995-09-01       Impact factor: 5.469

7.  RNA structural patterns and splicing: molecular basis for an RNA-based enhancer.

Authors:  D Libri; F Stutz; T McCarthy; M Rosbash
Journal:  RNA       Date:  1995-06       Impact factor: 4.942

8.  Effects of secondary structure on pre-mRNA splicing: hairpins sequestering the 5' but not the 3' splice site inhibit intron processing in Nicotiana plumbaginifolia.

Authors:  H X Liu; G J Goodall; R Kole; W Filipowicz
Journal:  EMBO J       Date:  1995-01-16       Impact factor: 11.598

9.  Tetracycline aptamer-controlled regulation of pre-mRNA splicing in yeast.

Authors:  Julia E Weigand; Beatrix Suess
Journal:  Nucleic Acids Res       Date:  2007-06-12       Impact factor: 16.971

10.  Muscleblind-like 1 interacts with RNA hairpins in splicing target and pathogenic RNAs.

Authors:  Yuan Yuan; Sarah A Compton; Krzysztof Sobczak; Myrna G Stenberg; Charles A Thornton; Jack D Griffith; Maurice S Swanson
Journal:  Nucleic Acids Res       Date:  2007-08-15       Impact factor: 16.971

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  130 in total

1.  Structural basis of G-tract recognition and encaging by hnRNP F quasi-RRMs.

Authors:  Cyril Dominguez; Jean-François Fisette; Benoit Chabot; Frédéric H-T Allain
Journal:  Nat Struct Mol Biol       Date:  2010-06-06       Impact factor: 15.369

2.  Splicing regulation in spinal muscular atrophy by an RNA structure formed by long-distance interactions.

Authors:  Natalia N Singh; Brian M Lee; Ravindra N Singh
Journal:  Ann N Y Acad Sci       Date:  2015-02-27       Impact factor: 5.691

3.  Loss of exon identity is a common mechanism of human inherited disease.

Authors:  Timothy Sterne-Weiler; Jonathan Howard; Matthew Mort; David N Cooper; Jeremy R Sanford
Journal:  Genome Res       Date:  2011-07-12       Impact factor: 9.043

4.  Widespread recognition of 5' splice sites by noncanonical base-pairing to U1 snRNA involving bulged nucleotides.

Authors:  Xavier Roca; Martin Akerman; Hans Gaus; Andrés Berdeja; C Frank Bennett; Adrian R Krainer
Journal:  Genes Dev       Date:  2012-05-15       Impact factor: 11.361

5.  Evidence of pervasive biologically functional secondary structures within the genomes of eukaryotic single-stranded DNA viruses.

Authors:  Brejnev Muhizi Muhire; Michael Golden; Ben Murrell; Pierre Lefeuvre; Jean-Michel Lett; Alistair Gray; Art Y F Poon; Nobubelo Kwanele Ngandu; Yves Semegni; Emil Pavlov Tanov; Adérito Luis Monjane; Gordon William Harkins; Arvind Varsani; Dionne Natalie Shepherd; Darren Patrick Martin
Journal:  J Virol       Date:  2013-11-27       Impact factor: 5.103

Review 6.  Idiosyncrasies of hnRNP A1-RNA recognition: Can binding mode influence function.

Authors:  Jeffrey D Levengood; Blanton S Tolbert
Journal:  Semin Cell Dev Biol       Date:  2018-04-09       Impact factor: 7.727

7.  Alternative splicing in the coding region of Ppo-A1 directly influences the polyphenol oxidase activity in common wheat (Triticum aestivum L.).

Authors:  Youwei Sun; Zhonghu He; Wujun Ma; Xianchun Xia
Journal:  Funct Integr Genomics       Date:  2010-11-03       Impact factor: 3.410

8.  Homologous SV40 RNA trans-splicing: a new mechanism for diversification of viral sequences and phenotypes.

Authors:  Joachim Eul; Volker Patzel
Journal:  RNA Biol       Date:  2013-10-14       Impact factor: 4.652

Review 9.  Mechanistic principles of antisense targets for the treatment of spinal muscular atrophy.

Authors:  Natalia N Singh; Brian M Lee; Christine J DiDonato; Ravindra N Singh
Journal:  Future Med Chem       Date:  2015-09-18       Impact factor: 3.808

Review 10.  Targeting RNA in mammalian systems with small molecules.

Authors:  Anita Donlic; Amanda E Hargrove
Journal:  Wiley Interdiscip Rev RNA       Date:  2018-05-03       Impact factor: 9.957

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