Transcriptome-wide identification of splicing defects upon XAB2 knockdown

We performed RNA-seq to determine the impact of XAB2 depletion on global splicing. The results show that XAB2 depletion using two different siRNAs led to a wide range of splicing defects, with more than 50% events were intron retention. HeLa cells were transfected with control or XAB2 siRNA for 48 h. Total RNA was then purified using TRIzol, treated with DNase I and Ribo-Zero rRNA Removal kit to generate sequencing libraries, and subjected to strand-specific paired-end RNA-seq analyses using Illumina Hiseq X Ten platform by Novogene company (China). We used junction usage model (JUM) program to identify XAB2-regulated differential alternative pre-mRNA splicing events.