intron/exon structures

[Pierre Rouzé]

"Simon Geir Møller" wrote:
>
>  Hi,
>
>  We are interested in intron/exon structure boundaries and with regrads to
>  this we would appreciate if anybody could forward information concerning:
>  1) Any gene that was annotated incorrectly in the datatbase ie, annotated
>  intron/exon boundaries did not correspond to the isolated cDNA, and
>  2) Any gene with a large number of annotated introns.
>

         This is something on which we have been working on
         for some time, first for the development of NetPlantGene
         and NetGene2 together with Søren Brunak, and more
         recently for the validation of gene prediction software.
         We have a paper in press on this issue (to appear in
         BioInformatics very soon I guess). Linked to this paper
         we developped a dataset of Arabidopsis genes in their
         genomic context (Araset) containing 168 validated genes.
         Many of these genes were not properly annotated ...
         which is not (alas) a big surprise: it's just very easy
         unfortunately to fulfil your first asking ! In our data
         set there are some "big" genes, i.e. with many exons,
         although even bigger ones are documented.

         Araset is available on our web site :
         http://sphinx.rug.ac.be:8080/biocomp/GeneComp/

         please refer to our paper when using this dataset !

	Pierre

-- 
Pierre ROUZE			     Laboratoire Associe de l'INRA
Department of Plant Genetics   Tel:32.9.2645189   Fax:32.9.2645008
University of Ghent, K.L. Ledeganckstraat 35, B-9000 GENT, Belgium
Vlaams interuniversitair Instituut voor Biotechnologie         VIB
Pierre.Rouze at gengenp.rug.ac.be  http://www.plantgenetics.rug.ac.be
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