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Fig. 5 | Genome Biology

Fig. 5

From: Massive A-to-I RNA editing is common across the Metazoa and correlates with dsRNA abundance

Fig. 5

Harbinger is the most edited repeat family in Xenopus tropicalis, belonging to the DNA repeat class. The Harbinger repeats are palindromic, likely forming tight dsRNA structures. Here we show the predicted secondary structure (using MFOLD [60]) for a single representative Harbinger repeat (221-bp in length; located at GL172703: 562862-563082) which was found to be highly hyper-edited (65/77 adenosines were found hyper-edited; marked with arrows). Clearly, tight dsRNA is formed without the requirement of nearby reverse-oriented similar repeat, explaining the high level of hyper-editing in Xenopus tropicalis. We measured the editing level for each site (using all reads, including ones that were normally aligned to the region). Strongly edited sites (>30%) are marked with red arrows, moderately edited sites (1–30%) with orange arrows, and black arrows point to sites that were not found edited by the non-hyper-edited reads (or were not covered by those reads), see also Additional file 1: Figure S7

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