Figure 6.

Interactions of Rrp44 and Rrp6 with Pre-mRNA

(A) Frequencies of reads mapped to pre-mRNAs and mature mRNAs. IE/EE: Relative numbers of reads mapped to intron-exon junctions (IE) in pre-mRNAs relative to exon-exon junctions (EE) in mature mRNAs. Introns/Total mRNA: Numbers of reads mapped to mRNA introns relative to the total number of reads mapped to mRNAs. 3′SS/5′SS: Relative numbers of reads mapped to 3′ splice sites (3′SS) in pre-mRNAs, relative to 5′ splice (5′SS) junctions. Bars indicate the standard error.

(B) Rrp44 and Rrp6 binding profiles (black) along 219 intron-containing pre-mRNAs. Pre-mRNAs are aligned at their 3′ splice sites, and ordered by intron length. Intron boundaries are shown as red lines.

(C) Grouping of 4849 mRNAs by pattern of interactions with exosome proteins. Experiments were clustered by complete linkage using the correlation distance metric. Replicate experiments clustered together confirming the reproducibility of the data. Numbers of reads mapped to individual RNAs are shown in shades of red.