Skip Navigation


Bioinformatics Advance Access originally published online on January 12, 2005
Bioinformatics 2005 21(9):1758-1763; doi:10.1093/bioinformatics/bti253
This Article
Right arrow Full Text Freely available
Right arrow FREE Full Text (Print PDF) Freely available
Right arrow All Versions of this Article:
21/9/1758    most recent
bti253v1
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 (8)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Kitagawa, N.
Right arrow Articles by Tomita, M.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Kitagawa, N.
Right arrow Articles by Tomita, M.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oupjournals.org

Computational analysis suggests that alternative first exons are involved in tissue-specific transcription in rice (Oryza sativa)

Noriyuki Kitagawa 1,3, Takanori Washio 1,4,*, Shunichi Kosugi 1, Tomoya Yamashita 1,3, Kenji Higashi 1,3, Hiroshi Yanagawa 1, Kenichi Higo 5, Koji Satoh 5, Yasuhiro Ohtomo 6, Tomomi Sunako 6, Kazuo Murakami 6, Kenichi Matsubara 6, Jun Kawai 7, Piero Carninci 7, Yoshihide Hayashizaki 7, Shoshi Kikuchi 5 and Masaru Tomita 1,2

1Institute for Advanced Biosciences, Keio University Tsuruoka, Yamagata 997-0035, Japan
2Department of Environmental Information, Keio University Fujisawa, Kanagawa 252-8520, Japan
3Graduate School of Media and Governance, Keio University Fujisawa, Kanagawa 252-8520, Japan
4Graduate School of Information Science, Nara Institute of Science and Technology Ikoma, Nara 630-0192, Japan
5National Institute of Agrobiological Sciences Tsukuba, Ibaraki 305-0062, Japan
6Foundation for Advancement of International Science (FAIS) Tsukuba, Ibaraki 305-0062, Japan
7Laboratory for Genome Exploration Research Group, RIKEN Genomic Sciences Center (GSC) Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan

*To whom correspondence should be addressed.

Motivation: Transcription start site selection and alternative splicing greatly contribute to diversifying gene expression. Recent studies have revealed the existence of alternative first exons, but most have involved mammalian genes, and as yet the regulation of usage of alternative first exons has not been clarified, especially in plants.

Results: We systematically identified putative alternative first exon transcripts in rice, verified the candidates using RT–PCR, and searched for the promoter elements that might regulate the alternative first exons. As a result, we detected a number of unreported alternative first exons, some of which are regulated in a tissue-specific manner.

Contact: washy{at}sfc.keio.ac.jp

Supplementary information: http://www.bioinfo.sfc.keio.ac.jp/research/intron


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
 Plant CellHome page
M. Kakita, K. Murase, M. Iwano, T. Matsumoto, M. Watanabe, H. Shiba, A. Isogai, and S. Takayama
Two Distinct Forms of M-Locus Protein Kinase Localize to the Plasma Membrane and Interact Directly with S-Locus Receptor Kinase to Transduce Self-Incompatibility Signaling in Brassica rapa
PLANT CELL, December 1, 2007; 19(12): 3961 - 3973.
[Abstract] [Full Text] [PDF]

Home page
 ScienceHome page
S. Kay, S. Hahn, E. Marois, G. Hause, and U. Bonas
A Bacterial Effector Acts as a Plant Transcription Factor and Induces a Cell Size Regulator
Science, October 26, 2007; 318(5850): 648 - 651.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
U. Ohler
Identification of core promoter modules in Drosophila and their application in accurate transcription start site prediction
Nucleic Acids Res., November 6, 2006; 34(20): 5943 - 5950.
[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.