Panel A shows lollipop plots indicating the transcriptional start sites with orange arrows and uses different colors to show exonic (green/red) and intronic (blue/purple) locations, as well as sense and antisense strand orientations. Shapes indicate NEPC (circle) versus non-NEPC (square) tumor status, with border thickness showing samples with matched RNA-seq data. Yellow highlighted colors indicate the presence of transposon-RNA fusion events. Panel B is a bar graph showing the distribution of fusion junctions across different transposon regions, stratified by tumor type. The regions include 5-flank, SA1, MSCV-LTR, SD, SA2, IRDR, and 3-flank. Panel C displays lollipop plots for transposon insertion sites in prioritized CIS-genes, similar to Panel A, with additional details on fusion events.
Lollipop representation of selected CIS genes (related to Fig. 5). (A and C) Lollipop plots showing transposon insertion sites for prioritized CIS genes. TSS (orange) arrows indicate transcriptional orientation. Insertion colors indicate exonic (green/red) versus intronic (blue/purple) location and sense versus antisense strand orientation. Shape indicates NEPC (circle) versus non-NEPC (square) tumor status. Border thickness indicates samples with matched RNA-seq data. Yellow highlighted colors indicate presence of transposon-RNA fusion event in that sample, at that site. (B) Fusion events by transposon region. Bar plot showing distribution of fusion junctions across T2/Onc2 functional regions as depicted (5′ to 3′: 5-flank, SA1, MSCV-LTR, SD, SA2, IRDR, 3-flank), stratified by tumor type. SA1 and SA2, splice acceptor sites from carp β-actin gene and from mouse Engrailed2 gene; MSCV-LTR, 5′ long terminal repeat of the murine stem cell virus; SD, splice donor site; IRDR, inverted repeat/direct repeat.