Skip to main content
. 2018 Aug 29;46(20):10905–10916. doi: 10.1093/nar/gky745

Figure 5.

Figure 5.

mRNA local thermodynamic flexibility in the 3′ region outside the siRNA-targeting site contributes to sdRNA efficacy. (A) The frequency of AU at each position (black bars) in the siRNA-targeting region and surrounding 5′ and 3′ regions was computed by subtracting the frequency of AU in non-functional siRNAs from that in functional (< 24% mRNA expression remaining) siRNAs. The background (grey area) was simulated using AU frequency in the randomly distributed training dataset of 356 siRNAs. The 80% confidence interval of the simulated background is shown. Analyzed mRNA positions are indicated at the top along with corresponding siRNA-targeting region (shaded area; positions 1-20). The location of cleavage site between positions 10 and 11 is indicated with a black arrow. (B) The frequency of AU at each position was averaged over a four-base region (black line). The average AU frequency was computed over each region (grey dotted line). The background (grey solid line) was averaged over a four-base region.