We retrieved the non-overlapping 1 Kb length sequence upstream of the transcription start site (TSS) for each StSET gene from the genome sequences of dAg [58] and considered it the putative promoter sequence. Using the MEME Suite web server [68], we identified the top 20 conserved motifs in the promoter sequences of StSET genes. The parameters used were motif width: 5 to 100 bases; site distribution: any number of repetitions. We identified cis-elements within the promoter sequences using the PlantCARE database with a frequency cut-off of three for each cis-element [36].
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