Figure 5.

Identification and molecular validation of novel splice junctions. (A) An IGV panel displaying the TRIMD-identified splice variants of annotated KSHV genes potentially generated from long-range or readthrough transcription. (B) Flow diagram showing the nested PCR method used for validation of novel exon-exon junctions in KSHV transcripts. (C, D) Agarose gel electrophoresis for the nested PCR amplification of cDNA from uninduced and induced BCBL-1 cells, across novel identified exon-exon junction of (C) vIRF3 coding isoform (vIRF3a-02) that originates from near the LANA coding region at 124005 nt and (D) ORF24 transcript isoform (ORF24-01) that originates at 119010 nt (ori-lytR TSS).