Additional file 1.
Catalog of E(CG)-bearing promoters by genome and gene function. All fly genes matching the fly RiBi promoter architecture (see Methods), or else constituting the fly ortholog to a yeast nucleolar or RiBi gene is listed. For each such fly gene, the corresponding ortholog (human, nematode, and yeast) or closest 1-to-1 homolog (cnidarian, choanoflagellate) is listed along with the presence (1, red) or absence (0) of E(CG) within 600 bp of the annotated start site. The E values scores for BLASTP matches in the Nematostella and Monosiga genomes are given in parentheses for all matches with E <e - 5. Matches below e-10 are highlighted in yellow. Boxes containing N/A indicate the presence of the cis-element could not be addressed because a distinct 1-to-1 ortholog could not be identified. Red highlighted yeast genes were listed as RiBi genes in a recent comprehensive review of eukaryotic ribosome biogenesis . C2 control data sets are shown where applicable.
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Brown et al. BMC Genomics 2008 9:442 doi:10.1186/1471-2164-9-442