Fig. 7
From: Insights into the design and interpretation of iCLIP experiments
A broad cDNA length range ameliorates the effects of constrained cDNA-ends. a The cDNA-starts of eIF4A3 iCLIP and CLIP experiments are plotted around the 1000 exon-exon junctions with the highest number of cDNAs. b Same as (a), but showing cDNA-ends. c Heatmap showing the position of cDNA-starts in eIF4A3-iCLIP1 around the 1000 exon-exon junctions with the highest number of cDNAs. Junctions are sorted according to their cDNA-end peak position. Each row shows the average of cDNA counts at all junctions with a cDNA-end peak at the indicated position. The values are normalised against the maximum value across all rows. On the right, the arrows mark parts of the figure in which binding site assignment corresponds to the schematic shown in Fig. 8d. Coloured rectangles mark the main region of eIF4A3 crosslinking (green), the expected EJC-binding region (yellow) and the position of the cDNA-end peak (blue). d Same as (c), but for eIF4A3-iCLIP2. The arrow in the figure marks the 17 nt minimal distance between cDNA-starts and the expected EJC-binding region that is required for cDNA-starts to be able to identify crosslink sites within the binding site. On the right, the arrows mark sections that correspond to the schematics shown in Fig. 8c, b