Fig. 2

Expression of CRSs according to publicly available modENCODE tiling array experiments with an exon expression score threshold of 300 (median of probe intensities for all probes found within that exon, normalized for cell lines) [30, 52]. Only CRSs showing at least 50% overlap with at least one transcript region are considered. Non-coding annotations were obtained from Rfam (v.12.2). A subset of the samples is derived from cell lines, which almost form an individual, although heterogenous, cluster (first annotation line). All other samples are derived from flies of one of two different strains (second annotation line) and different developmental stages (third annotation line). Some of the fly samples are derived from specific compartments (fourth annotation line). The fly samples form much more homogenous clusters according to their stages and compartments. Cell lines: Blue: Embryo-derived. Red: Derived from prothoracic, mesothoracic, imaginal, antenna or eye-antenna disc. Yellow: Derived from central nervous system. Strains: Blue: Yellow cinnabar brown speck. Red: Oregon-R-modENCODE. Stages: Blue: Embryos. Green: Larvae. Yellow: Prepupae. Red: Adults. Compartments: Green: Gut. Red: Mated ovary. Yellow: Virgin Head