Figure 4.

Seed-mRNA complementarity affects the magnitude of repression. (A) Cumulative distribution of mRNA, RFP, and TE log₂ fold changes after miR-1271-5p overexpression for genes with multiple 3′UTR binding sites, or single 8mer, 7mer-m8, or 7mer-1a sites. For this analysis, interactions with cumulative weighted context++ score < −0.2 were investigated to limit the inclusion of false positive miRNA-mRNA pairings, while retaining non-conserved interactions with potentially high importance. p-values were calculated relative to genes with no sites via the two-sided Kolmogorov-Smirnov test. Median log₂ fold-changes ± 95% CI reported top left. (B) Scatter plots comparing mRNA and RPF log₂ fold changes for genes analysed in panel (A), with Pearson’s correlation coefficients and p values reported top left. (C,D) As in (A,B), except after miR-1271-5p knockdown.