Ordered Partitioning Reveals Extended Splice-Site Consensus Information
نویسندگان
چکیده
منابع مشابه
Ordered partitioning reveals extended splice-site consensus information.
Using recently available cDNA and genomic data (Berkeley Drosophila Genome Project; http://www.fruitfly.org), we computed a large sample of 10,057 Drosophila splice sites. An information-theoretic analysis of the nucleotide sequences adjacent to these splice sites showed a strong correlation between the sizes of introns and exons and the levels of information, which is a measure of sequence con...
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Alternative pre-mRNA splicing may be the most efficient and widespread mechanism to generate multiple protein isoforms from single genes. Here, we describe the genomic analysis of one of the most frequent types of alternative pre-mRNA splicing, alternative 5'- and 3'-splice-site selection. Using an EST-based alternative splicing database recording >47,000 alternative splicing events, we determi...
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In eukaryotes, mRNAs are synthesized in the nucleus and then exported to the cytoplasm where they are translated into proteins. We have mapped an element, which when present in the 3'terminal exon or in an unspliced mRNA, inhibits mRNA nuclear export. This element has the same sequence as the consensus 5'splice site motif that is used to define the start of introns. Previously it was shown that...
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Splice site nucleotide substitutions can be analyzed by comparing the individual information contents (Ri, bits) of the normal and variant splice junction sequences [Rogan and Schneider, 1995]. In the present study, we related splicing abnormalities to changes in Ri values of 111 previously reported splice site substitutions in 41 different genes. Mutant donor and acceptor sites have significan...
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A transitive orientation of a graph is an orientation of the edges that produces a transitive digraph. The modular decomposition of a graph is a canonical representation of all of its modules. Finding a transitive orientation and finding the modular decomposition are in some sense dual problems. In this paper, we describe a simple O(n+mlogn) algorithm that uses this duality to find both a trans...
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ژورنال
عنوان ژورنال: Genome Research
سال: 2003
ISSN: 1088-9051
DOI: 10.1101/gr.1715204