Fig. 1

Evidence for RNA processing in an HTLV-1-infected cell line. a One representative cap-associated gene expression (CAGE) profile for TBX-4B cells is visualized by integrate genomic viewer (IGV). Each gray line represents each sequencing read we detected in the analysis. The region around the integrated provirus is shown as red bar. b Quantification of the CAGE and nascent-elongating-transcript CAGE (NET-CAGE) reads in the sense orientation within the proviral region, between the LTRs. c The same is shown for reads in the anti-sense orientation. d CAGE and NET-CAGE profiles in the proviral region between the LTRs (top: sense signal; bottom: anti-sense signal). Only the first nucleotide of the 5′ side of the transcripts is shown (transcription start site; TSS). The signal was calculated as a percentage of total reads that aligned to the provirus. e Signal in a sliding window of 10 kb is shown for CAGE. f NET-CAGE datasets of TBX-4B cells. Red circles correspond to virus-aligned reads, whereas black circles correspond to human genome-aligned reads