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Fig. 1 | Genome Biology

Fig. 1

From: Predicting microRNA targeting efficacy in Drosophila

Fig. 1

Drosophila miRNAs mediate mRNA repression through the targeting of canonical site types, preferentially in 3′ UTRs. a The increased efficacy in Drosophila of sites with an A across from miRNA position 1. Shown is the response of mRNAs to the transfection of a miRNA (either miR-1, miR-4, miR-92a, miR-124, miR-263a, or miR-994). Data were pooled across these six independent experiments. Plotted are cumulative distributions of mRNA fold changes observed upon miRNA transfection for mRNAs that contained a single site of the indicated type to the transfected miRNA. The site types compared are 8mers that perfectly match miRNA positions 2–7 and have the specified nucleotide (A, C, G, or U) across from position 1 of the miRNA. Also plotted for comparison is the cumulative distribution of mRNA fold changes for mRNAs that did not contain a canonical 7- or 8-nt site to the transfected RNA in their 3′ UTR (no site). Similarity of site-containing distributions to the no-site distribution was tested with the one-sided Kolmogorov–Smirnov (K–S) test (P values). Shown in parentheses are the numbers of mRNAs analyzed in each category. b The six canonical site types for which a signal for repression was detected after transfecting a miRNA into Drosophila cells. c–e The efficacy of the canonical site types observed in Drosophila 3′ UTRs (c), ORFs (d), and 5′ UTRs (e). These panels are as in a, but compare fold-change distributions for mRNAs possessing a single canonical site in the indicated region to those with no canonical sites in the entirety of the mRNA. See also Additional file 2: Figures S1 and S2

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