Homo sapiens 3'' end sequencing with A-seq

The processing of 3' untranslated regions of messenger RNAs changes widely in relation to the cellular state, yet the key regulators remain largely unknown. To uncover sequence elements that drive the choice of polyadenylation (poly(A)) sites in specific conditions, we have developed KAPAC, a method to infer activities of oligomeric sequence motifs on polyadenylation site choice. We demonstrate that KAPAC readily uncovers the sequence elements, targets and binding site position-dependent activity of the mammalian cleavage factor I which regulates the length of 3' untranslated regions.