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The RNA sequences are the major materials accessible for the nuclear splicing machinery, therefore, understanding how they are transformed into a binary decision of intron removal and exon ligation is critical in resolving the mystery of pre-mRNA splicing. This paper proposed an exon/intron discrimination framework (EIDF) to profile the intrinsic differences between exons and their immediate introns based on information of single sequence. The EIDF focuses on the frequencies of specific mono-/di-/tri-nucleotides in the individual sequence and a simple exon/intron classifier is implemented accordingly. The experimental results showed the proposed EIDF is a valuable profile of splice site sequences and the possibility of simulating the processes of splicing machinery in silico is also revealed.

An exon/intron disparity framework based on the nucleotide profile of single sequence