Skip Navigation


Nucleic Acids Research Advance Access originally published online on May 8, 2009
Nucleic Acids Research 2009 37(Web Server issue):W189-W192; doi:10.1093/nar/gkp320
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (2937K) Freely available
Right arrow Screen PDF (377K) Freely available
Right arrowOA All Versions of this Article:
37/suppl_2/W189    most recent
gkp320v1
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 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 Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Schwartz, S.
Right arrow Articles by Ast, G.
PubMed
Right arrow PubMed Citation
Right arrow Articles by Schwartz, S.
Right arrow Articles by Ast, G.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2009, Vol. 37, No. suppl_2 W189-W192
© 2009 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Articles

SROOGLE: webserver for integrative, user-friendly visualization of splicing signals

Schraga Schwartz, Eitan Hall and Gil Ast*

Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel-Aviv University, Ramat Aviv 69978, Israel

*To whom correspondence should be addressed. Tel: +972 3 640 6893; Fax: +972 3 640 5168; Email: gilast{at}post.tau.ac.il

Received January 29, 2009. Revised April 7, 2009. Accepted April 20, 2009.

Exons are typically only 140 nt in length and are surrounded by intronic oceans that are thousands of nucleotides long. Four core splicing signals, aided by splicing-regulatory sequences (SRSs), direct the splicing machinery to the exon/intron junctions. Many different algorithms have been developed to identify and score the four splicing signals and thousands of putative SRSs have been identified, both computationally and experimentally. Here we describe SROOGLE, a webserver that makes splicing signal sequence and scoring data available to the biologist in an integrated, visual, easily interpretable, and user-friendly format. SROOGLE's input consists of the sequence of an exon and flanking introns. The graphic browser output displays the four core splicing signals with scores based on nine different algorithms and highlights sequences belonging to 13 different groups of SRSs. The interface also offers the ability to examine the effect of point mutations at any given position, as well a range of additional metrics and statistical measures regarding each potential signal. SROOGLE is available at http://sroogle.tau.ac.il, and may also be downloaded as a desktop version.

The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors.


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




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.