Figure 7.

Dynamic levels of Alu-exonized and Alu-antisense transcripts using iPOP data set during viral recovery phase. (A) Upper panel represents analysis of time series data for poly-A⁺ RNA-seq from iPOP data set during viral recovery phase showing increase in expression levels along the time course for 59 Alu-exonized genes. Lower panel corresponds to time point matched analysis for small RNA-seq from the same data set, emphasizing that the combined expression level of antisense transcripts decreases as we move away from the viral infection stage. (B) The functional importance of different Alu-mediated events is evident from differential levels of Alu-exonized and non-Alu exonized transcripts during viral recovery stage. In upper panel, ANKS1B and WDR33 show that as we move away from viral infection stage, the levels of Alu antisense transcript decreases, whereas, its target, the Alu-exonized transcripts show elevated expression pattern. Interestingly, the levels of the non-Alu-exonized counterpart do not change during this phase. In lower panel, FKBP5 and GGA1 show that although non-Alu-exonized transcript levels show anti-correlation with Alu-antisense levels, the levels of Alu-exonized transcripts are unchanged.