Figure 1

Sequence and predicted secondary structure of 3× pen aRNA (160 nt). Sequence outside the grey box is the 5S rRNA scaffold, Bst aRNA [35], and sequence inside the grey box is RNA insert (figure modified from [37]). DNAzymes Pen17zyme1, -1B, and -1C are expected to cut 3×pen aRNA after nucleotide 94, and Pen17zyme2 is expected to cut after nucleotide 23. The excision sites on 3×pen aRNA are marked by arrows, and the expected excision product is 71 nucleotides long.