Probabilistic prediction of Saccharomyces cerevisiae mRNA 3'-processing sites.
Document Type
Article
Publication Date
2002
Keywords
Base-Sequence, Comparative-Study, Genes-Fungal, Markov-Chains, RNA-3'-End-Processing, RNA-Fungal, RNA-Messenger, Saccharomyces-cerevisiae, Sensitivity-and-Specificity, SUPPORT-NON-U-S-GOVT, SUPPORT-U-S-GOVT-NON-P-H-S, SUPPORT-U-S-GOVT-P-H-S
First Page
1851
Last Page
1858
JAX Source
Nucleic Acids Res 2002 Apr; 30(8):1851-8.
Abstract
We present a tool for the prediction of mRNA 3'-processing (cleavage and polyadenylation) sites in the yeast Saccharomyces cerevisiae, based on a discrete state-space model or hidden Markov model. Comparison of predicted sites with experimentally verified 3'-processing sites indicates good agreement. All predicted or known yeast genes were analyzed to find probable 3'-processing sites. Known alternative 3'-processing sites, both within the 3'-untranslated region and within the protein coding sequence were successfully identified, leading to the possibility of prediction of previously unknown alternative sites. The lack of an apparent 3'-processing site calls into question the validity of some predicted genes. This is specifically investigated for predicted genes with overlapping coding sequences.
Recommended Citation
Graber JH,
McAllister GD,
Smith TF.
Probabilistic prediction of Saccharomyces cerevisiae mRNA 3'-processing sites. Nucleic Acids Res 2002 Apr; 30(8):1851-8.