Nuclear export is a limiting factor in eukaryotic mRNA metabolism
Fig 3
Factors correlating with nuclear and cytosolic half-lives.
(A) Correlation of half-life estimates with gene-specific parameters. Shown are the nuclear and cytosolic half-lives plotted against the 3’UTR lengths and the CDS lengths per gene. All 3’UTRs are shown in gray and 3’UTRs with reliable half-life estimates are shown in green with corresponding regression lines. (B) Comparison between RNA half-lives of short and long isoforms of a 3’UTR region (242 peaks from 118 3’UTRs). The medians are indicated by the violet lines with corresponding text labels. (C) Nuclear half-lives differ between different RBP-bound transcripts. Density plots show the distribution of nuclear half-life fold-changes (FC) relative to the global median (all bound and unbound transcript half-lives) for selected RBP-bound transcripts (eCLIP data retrieved from ENCODE). Distribution densities with median fold-change above or below the global median are colored in blue and red, respectively. Black bars indicate the median of the respective distribution. The number of bound and unbound transcripts is given for each RBP. (D) Violin plot of the nuclear half-life distributions of transcripts that are either bound (red) or unbound (gray) by RBM15 (p < 0.05, Wilcoxon test; eCLIP data retrieved from ENCODE). (E) Nuclear and cytosolic RNA half-life estimates of lncRNAs. Blue dots represent lncRNA estimates and gray dots portray all other 3’UTRs. The blue lines indicate the median half-lives of the lncRNAs, the black lines indicate the median half-lives of all quantified 3’UTRs, respectively. (F) Expression level and RNA ratios of the ‘supernova’ gene SGK1.