Fig. 1: Spt5p is a critical regulator of proper sense and antisense transcription.

Median PRO-seq intensity for sense (a) and antisense (c) strands across all filtered genes (n = 1807) in Spt5p-AID* cells. IAA (indole-3-acetic acid; auxin) at 1 mM was used to trigger the rapid depletion of Spt5p. Three conditions are illustrated in the plots, based on the time elapsed after the initiation of IAA treatment: control (red), short (blue), and long (violet). b Heatmaps depict the log₂FC of the signal on the sense strand for PRO-seq (left), mRNA-seq (middle), and ChIP-seq (right) ranked by gene length, as obtained upon Spt5p depletion. The TSS and TES of each gene are represented by black dots. d Heatmaps depict the log₂FC of the antisense signals for PRO-seq (left) and mRNA-seq (right). e Boxplots represent the log₂FC for PRO-seq signal on both sense and antisense strands in intragenic regions; p-values were calculated using the Wilcox test. f Scatter density plots depict the correlation between log₂FC of the sense early GB density and log₂FC of the antisense PR or GB density. Early GB represents the region between ‘TSS + 250 bp’ and ‘TSS + 500 bp’ for genes longer than 1 kb in S. cerevisiae. The antisense data are distributed on the y axis, while the sense PRO-seq data are distributed on the x axis. The blue line denotes the trend line. Pearson correlation coefficient (ρ) is shown at the top left. g Genome browser view of PRO-seq signals for representative genes in Spt5p mutants. The antisense signal is represented reversely to the sense transcription.