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Nucleic Acids Research Advance Access originally published online on December 14, 2006
Nucleic Acids Research 2007 35(Database issue):D173-D177; doi:10.1093/nar/gkl793
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Nucleic Acids Research, 2007, Vol. 35, Database issue D173-D177
© 2006 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.

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REDIdb: the RNA editing database

Ernesto Picardi, Teresa Maria Rosaria Regina, Axel Brennicke1 and Carla Quagliariello*

Dipartimento di Biologia Cellulare, Università della Calabria 87030 Arcavacata di Rende (CS), Italy 1 Molekulare Botanik, Universität Ulm 89069 Ulm, Germany

*To whom correspondence should be addressed. Tel: +39 0984 492938; Fax: +39 0984 492911; Email: c.quagliariello{at}unical.it

Received July 24, 2006. Revised September 4, 2006. Accepted October 2, 2006.

The RNA Editing Database (REDIdb) is an interactive, web-based database created and designed with the aim to allocate RNA editing events such as substitutions, insertions and deletions occurring in a wide range of organisms. The database contains both fully and partially sequenced DNA molecules for which editing information is available either by experimental inspection (in vitro) or by computational detection (in silico). Each record of REDIdb is organized in a specific flat-file containing a description of the main characteristics of the entry, a feature table with the editing events and related details and a sequence zone with both the genomic sequence and the corresponding edited transcript. REDIdb is a relational database in which the browsing and identification of editing sites has been simplified by means of two facilities to either graphically display genomic or cDNA sequences or to show the corresponding alignment. In both cases, all editing sites are highlighted in colour and their relative positions are detailed by mousing over. New editing positions can be directly submitted to REDIdb after a user-specific registration to obtain authorized secure access. This first version of REDIdb database stores 9964 editing events and can be freely queried at http://biologia.unical.it/py_script/search.html.


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