Figure 4.

Enhanced mRNA Uncapping Levels in TE-Related Genes, Pseudogenes, and Small RNA Targets.

(A) and (B) An mRNA uncapping level distribution of all expressed genes is shown by the histogram and the black line, while colored lines show distributions of other mRNA groups as labeled: miSVM, computational predicted miRNAs candidates; cis-NAT, overlapping cis-natural antisense transcripts. Blue vertical lines show uncapped/total ratios of 0.5 and 2, which were used as cutoffs for depletion and enrichment, respectively.

(C) Scatterplot of uncapping levels of miRNA (blue) and ta-siRNA (orange) target mRNAs versus miRNA and ta-siRNA abundance in flower tissues.

(D) Levels of uncapped and total mRNA abundance and their ratios for miRNA and ta-siRNA target genes using the color code shown at lower right. Genes are grouped according to their targeting miRNA or ta-siRNA.