title: SHAPE-MaP of Homo sapiens: Replicate 2 of amplicon 2 miR-17-92 total-CNNC mutant + ctrl siRNA plus-reagent
design: HEK293 cells were transfected with Silencer Select pre-designed siRNA for SRSF3 or negative control (Thermo Fisher Scientific) according to the manufacturers instructions. The cells were also transfected with miR-17-92 constructs in which all (total mutant) SRSF3 binding sites (CNNC) or SRSF3 binding sites located downstream of miR-17 and -20a (17/20a mutant) were mutated. In-Cell SHAPE-MaP was performed in control and SRSF3 knockdown cells for both miR-17-92 mutants. 2-methylnicotinic acid imidazolide (NAI, 100M) was used as the electrophile (+ reagent) and DMSO as a control (- reagent). NAI was quenched with DTT to achieve accurate RNA structure probing in the optimal reaction time frame. Sequencing was performed using Illumina MiSeq.