Tyrosine 1–phosphorylated RNA polymerase II transcribes PROMPTs to facilitate proximal promoter pausing and induce global transcriptional repression in response to DNA damage

IR-induced Y1P-transcribed PROMPTs are enriched in PRC2 binding motifs. (A) Pie chart showing the proportion of sequences predicted to harbor a rG4 structure among the up-regulated (P-value < 0.05, log₂FC > 0.1) PROMPTs, which are correlated with down-regulated GB expression and increased PI upon IR from Y1P samples. (B) Pie chart showing the proportion of sequences predicted to harbor a rG4 structure among the unchanged (−0.05 log₂FC < 0.05 or P-value > 0.05) PROMPTs upon IR from Y1P. (C) Probability density plots representing rG4 coverage across up-regulated PROMPTs, which are linked with down-regulated GB expression and increased PI versus unchanged PROMPTs upon IR from Y1P samples. A Mann–Whitney U test is used to compare median values of the two probability distributions. (D) RNA-binding motifs of PRC2 identified using dCLIP (Rosenberg et al. 2021). (E) Bar charts showing the percentage of sequences containing a PRC2 motif among the up-regulated (P-value < 0.05, log₂FC > 0.1) PROMPTs, which are correlated with down-regulated GB expression and increased PI upon IR from Y1P samples versus unchanged PROMPTs. A Mann–Whitney U test was to compute statistical significance in the difference in enrichment of PRC2 motifs between up-regulated and unchanged PROMPTs.