Fig. 5 | Nature Communications

Fig. 5

From: High-throughput in vivo mapping of RNA accessible interfaces to identify functional sRNA binding sites

Fig. 5

Validated sRNA:mRNA interactions support the use of INTERFACE insights to inform sRNA target predictions. a All positive EMSA results from the benchmarking study are pictured with respective controls (i.e., sRNA only and sRNA+ random sequence). A 1:10 molar sRNA:mRNA ratio was used in all cases. sRNA names are indicated above corresponding EMSA results, and mRNA names and lengths of representative fragments chosen for validation are indicated under each respective lane. b Predicted IntaRNA interactions are shown for each positive result. Likely functional regions that were selected via the pipeline for selection of “true” predicted mRNA targets of under-characterized sRNAs (Fig. 4b) are highlighted in colors corresponding to their observed accessibilities (red = high, blue = low). mRNA positions are indication, in which the 5′-UTR corresponds to negative position values relative to the start codon. Start codon positions (first nucleotide = +1) are highlighted in green

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