ExonSuite: algorithmically optimizing alternative gene splicing for the PUF proteins.

The stability of mRNA and its translation is a vital process necessary for proper protein production. The specificity of the regulation is controlled by specific RNA motifs and regulatory proteins. Pumilio/fem-3 mRNA-binding factor (PUF) proteins are usually used in regulating mRNA stability as well as translation. Here, we optimized a PUF protein target finder program to understand the natural diversity of RNA recognition by this family of proteins. ExonSuite is available to compile and run at https://github.com/dilanustek/ExonSuite.