Gene expression and intron retention analysis of bktRNA1-depleted human cells

Backwark kink-turn RNA 1 (bktRNA1) is a novel post-transcriptional regulator with a role in RNA modification. Here, we show that human bktRNA1 interacts with 15.5K and FBL and guides 2'-O-methylation in the 8th of U12 snRNA. Given that U12 plays crucial role in minor intron splicin, we knockouted bktRNA1 in HCT116 cells and examined the effects of the modification on minor splicing by transcriptome analyses. Our work defines a novel functional interaction bwtween bktRNA1 and RNA processing and highlighs that a single modification alteration may contribute to global impairment of the splicing machinery. Overall design: We analysed RNA from wild-type HCT116 (WT) cells and four bktRNA1-deficient (KO-1, KO-2, KO-3 and KO-4) clones. For each condition, mRNA-seq analysis was conducted in triplicate from three independent expriments. We compare KO-1 vs WT, KO-2 vs WT, KO-3 vs WT and KO-4 vs WT.