Extended Data Fig. 5: Unproductive splicing is less abundant in highly transcribed and highly constrained genes.

(a) Correlation between gene expression and the maximum junction PSI of any unproductive junction in the gene, a proxy for percent of unproductive transcripts. The PSI of a junction is the number of reads mapping to the junction, divided by the maximum number of reads mapped to any junction in the same gene. The junction with the highest number of reads in a given gene has a junction PSI of 100%. SRSF genes (red) are well-known examples^12,21 of genes with high gene expression and high unproductive junction PSI. (b) Highly expressed genes have a lower unproductive splicing rate, as measured by the genewise percent of splice junction reads that are unproductive. Correlation summarized with spearman correlation coefficient and P value. Correlation visually presented as cumulative distribution of percent unproductive splice junctions, grouped by expression quintiles. (c) Similar to B, showing that genes with a higher S_het score⁸⁶ (suggesting more selective constraint) have a lower unproductive splicing rate. Correlations in each panel summarized with spearman correlation coefficient and two-sided correlation test P value.