Genome wide analysis of Arabidopsis thaliana reveals high frequency of AAAG(N7)CTTT motif

Sequence specific elements in DNA regulate transcription by recruiting transcription factors. The Dof proteins are a large family of transcription factors that share a single highly conserved zinc finger. The core to which Dof proteins bind has a consensus AAAG or ACTTTA sequence. These motifs have been over represented in many promoters. We performed a genome wide analysis of AAAG repeat elements increasing the spacer length from 0 to 25. Similar analyses was done with AAAG-CTTT motifs. We report unusual high frequency of AAAG(N7)CTTT in Arabidopsis thaliana genome. We also conclude that there is a preference for A/G nucleotides in spacer sequence between two AAAG repeats.