Extended Data Fig. 4: Pause motif search.
From: Evolution of promoter-proximal pausing enabled a new layer of transcription control
(a) Box and whiskers plots depict enrichment of motif scores for the pause button in each species. Samples are clustered by the presence or absence of NELF subunits (None: n = 8, NELF-B or C/D: n = 3, All, or lacking NELF-E: n = 9). A two-sided Mann-Whitney test was used to compute p-values. Boxplot whiskers extend from the first/third quartile to the minima/maxima, ignoring outliers, while horizontal lines denote the median. (b) Metaprofile plot of reads mapping to maternal and paternal alleles for genes with stronger pause motif on the maternal (left) or paternal (right) alleles. (c) Scatter plot of enrichment motif score of Initiator sequence plotted against the mean pausing index per species (R = 0.105, p = 0.661). Each dot is colored by the number of NELF subunits found in each sample. We fit a linear regression to derive the R2 and the p-value. A 95% confidence interval around this regression line is shown. (d) Box and whiskers plots depict enrichment of motif scores for the initiator motif in each species. Samples are clustered by the presence or absence of NELF subunits (None: n = 8, NELF-B or C/D: n = 3, All, or lacking NELF-E: n = 9). A two-sided Mann-Whitney test was used to compute p-values. Boxplot whiskers extend from the first/third quartile to the minima/maxima, ignoring outliers, while horizontal lines denote the median.
