Skip Navigation

Nucleic Acids Research 2005 33(18):5904-5913; doi:10.1093/nar/gki893
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (649K) Freely available
Right arrow Screen PDF (236K) Freely available
Right arrow Supplementary Material
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (6)
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Dixon, R. J.
Right arrow Articles by Samani, N. J.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Dixon, R. J.
Right arrow Articles by Samani, N. J.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Published online 19 October 2005

© The Author 2005. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oxfordjournals.org

Article

A genome-wide survey demonstrates widespread non-linear mRNA in expressed sequences from multiple species

Richard J. Dixon*, Ian C. Eperon1, Laurence Hall and Nilesh J. Samani

Department of Cardiovascular Sciences, University of Leicester, Clinical Sciences Wing, Glenfield Hospital Leicester LE3 9QP, UK 1Department of Biochemistry, University of Leicester, Clinical Sciences Wing, Glenfield Hospital Leicester LE3 9QP, UK

*To whom correspondence should be addressed. Tel: +44 116 250 2541; Fax: +44 116 287 5792; Email: rd67{at}le.ac.uk

Received August 22, 2005. Revised September 26, 2005. Accepted September 26, 2005.

We describe here the results of the first genome-wide survey of candidate exon repetition events in expressed sequences from human, mouse, rat, chicken, zebrafish and fly. Exon repetition is a rare event, reported in <10 genes, in which one or more exons is tandemly duplicated in mRNA but not in the gene. To identify candidates, we analysed database sequences for mRNA transcripts in which the order of the spliced exons does not follow the linear genomic order of the individual gene [events we term rearrangements or repetition in exon order (RREO)]. Using a computational approach, we have identified 245 genes in mammals that produce RREO events. RREO in mRNA occurs predominantly in the coding regions of genes. However, exon 1 is never involved. Analysis of the open reading frames suggests that this process may increase protein diversity and regulate protein expression via nonsense-mediated RNA decay. The sizes of the exons and introns involved around these events suggest a gene model structure that may facilitate non-linear splicing. These findings imply that RREO affects a significant subset of genes within a genome and suggests that non-linear information encoded within the genomes of complex organisms could contribute to phenotypic variation.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 BioinformaticsHome page
R. J. Dixon, I. C. Eperon, and N. J. Samani
Complementary intron sequence motifs associated with human exon repetition: a role for intragenic, inter-transcript interactions in gene expression
Bioinformatics, January 15, 2007; 23(2): 150 - 155.
[Abstract] [Full Text] [PDF]

Home page
 J HeredHome page
J. M. Houseley, Z. Garcia-Casado, M. Pascual, N. Paricio, K. M. C. O'Dell, D. G. Monckton, and R. D. Artero
Noncanonical RNAs From Transcripts of the Drosophila muscleblind Gene
J. Hered., May 1, 2006; 97(3): 253 - 260.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
H. Suzuki, Y. Zuo, J. Wang, M. Q. Zhang, A. Malhotra, and A. Mayeda
Characterization of RNase R-digested cellular RNA source that consists of lariat and circular RNAs from pre-mRNA splicing.
Nucleic Acids Res., January 1, 2006; 34(8): e63 - e63.
[Abstract] [Full Text] [PDF]


Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.