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STAT is the most enriched cis-elements in the promoter regions of those differentially expressed genes.
The finding that STAT was the most enriched cis-elements indicated the identification of a sub-group of potential direct transcriptional targets of Stat3 in lung epithelial cells.
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The promoter regions of these genes were therefore analyzed for the presence of enriched cis-elements using the Athena [78] and POBO [79] promoter analysis programs.
However, the other 10 enriched cis-elements (LFY, RAV1A, CAAT-box, MYB4, W-box, GCC-box, RAV1B, MYB, CCA1 and Bellringer BS2) in rice were not found to be over-represented in Arabidopsis.
The two most represented cis-elements were the TC-rich repeats (24) and G-Box (23).
Additionally, the most cis-elements were identified in GPGs.
In a majority of the promoters, most of the cis-elements are located within 1 kb upstream of the ATG sequence.
Overall DFR had the most occurrences of the cis-elements listed in Table 2 with a total of 26.
Nevertheless, our list of motifs up to now provides the most comprehensive analysis of cis-elements in a grass genome.
The regulatory software developed by CapitalBio Corporation (Beijing) was used to perform the analysis of the enriched cis-regulatory elements for five different tissue-enriched genes sets and differentially regulated genes in RT.
In order to examine whether specific motifs or composite modules are conserved in auxin-induced promoters of Arabidopsis and rice, we performed a comparative analysis of the promoter occurrence of each enriched cis-regulatory element.
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