Fig. 7.

Lark preferentially affects intron retention in the 5′ end of transcripts. a The effect of infection on intron retention in the wild type and adult enterocyte-specific knockdown and overexpression of lark (using a Myo1A^ts driver in conjunction with UAS-lark-RNAi for knockdown and UAS-lark-HA for overexpression). Violin plots show the density of delta PSI values of significantly altered events when comparing the P.e. infected vs. control samples. b The effect of lark perturbation on intron retention. For each condition, the knockdown or the overexpression transcriptome is compared to the wild type. c, d The density of the intron retention events along the normalized length of the gene in the control (c) or infected (d) condition for each of the lark perturbations. e, f The Lark RBM –log₁₀(p value) of enrichment in introns with increased and decreased retention compared to non-significantly changed introns. Note that there are three closely related RBMs in the database. The enrichment values of introns with decreased retention are flipped on the x-axis for illustrative purposes. e The infection effect, and f the genotype effect within conditions. Blue and black dots denote Lark RBM enrichment in introns with increased and decreased retention, respectively