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. Author manuscript; available in PMC: 2018 Jun 15.
Published in final edited form as: Dev Biol. 2016 Sep 14;426(2):460–471. doi: 10.1016/j.ydbio.2016.08.031

Fig. 4. Small RNA aligns to retrotransposon subfamilies that obtain H4K20me3, H3K9me3 and H3K27me3 first.

Fig. 4

A) Stage 8 small RNA reads that aligned to retro- (blue) and DNA transposons (red) were split based on nucleotide length and counted. B, C) Median small RNA (RPKM stage 8) was calculated for each TE subfamily and plotted according to B) retro- and C) DNA transposon clusters determined in Fig. 2A, B. The left and right hinges correspond to the 25th and 75th percentiles and the vertical line in between represents the median. D, E, F) All TE subfamilies were ranked by amount of small RNA (stage 8) and median D) H4K20me3 E) H3K9me3 and F) H3K27me3 enrichments were visualized for retrotransposons. Histone marks were plotted for stage 9, 10.5, 12.5, 16 and 30 (left to right). The line was plotted using Loess smoothing method, with a 0.95 confidence interval (line shade). All subfamilies left of the red line have a median small RNA RPKM of zero.