ALT lncRNA knockdown in BCBL1 cells

ALT is an KSHV immediately early transcript that expresses at high abundance in the nucleus. This lncRNA has an extreme long length, around 12,400 nt and coded from the KSHV latency-associated region on the opposite strand of the KSHV latency genes, including clusters of miRNAs, LANA,v-Flip, v-Cyclin and co-terminates with K14. It is identified to interact with multiple splicing proteins. In order to study the alternative splicing change upon ALT KD, RNAseq was conducted on ALT knockdown PEL cells. BCBL1 cells are induced with TPA for24 hours and transfected with 4 different GapmeRs targeting ALT or negative control gameR.