title: Genome wide analysis of Arabidopsis thaliana reveals high frequency of AAAGN7CTTT motif.
abstract: 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 AAAGN7CTTT in Arabidopsis thaliana genome. We also conclude that there is a preference for A/G nucleotides in spacer sequence between two AAAG repeats.
authors.affiliation: Department of Biological Sciences, Birla Institute of Technology & Sciences, Pilani, Rajasthan 333031, India ; Okinawa Institute of Science and Technology, Onna son, Okinawa, Japan.
authors.forename: Rajesh
authors.initials: R
authors.lastname: Mehrotra
authors.affiliation: Department of Biological Sciences, Birla Institute of Technology & Sciences, Pilani, Rajasthan 333031, India.
authors.forename: Vishesh
authors.initials: V
authors.lastname: Jain
authors.affiliation: Department of Mathematics, Birla Institute of Technology & Sciences, Pilani, Rajasthan 333031, India.
authors.forename: Chandra
authors.initials: C
authors.lastname: Shekhar
authors.affiliation: Department of Biological Sciences, Birla Institute of Technology & Sciences, Pilani, Rajasthan 333031, India.
authors.forename: Sandhya
authors.initials: S
authors.lastname: Mehrotra
keywords: Arabidopsis thaliana; Cis element; Designer promoter; Dof; Genome