Figure 3.

Sequence Logos of Promoter Motifs Detected in Green and White Plastids.

Logos were visualized using WebLogo (http://weblogo.berkeley.edu/).

(A) In green plastids, MEME analysis discovered a −10 (right) and −35 (left) PEP consensus element upstream of 44 and 20 TSSs, respectively. The motifs were found to be significantly enriched in green pre-TSS sequences.

(B) A manual search for the PEP promoter elements detected the −10 box (right) in 156 TSSs and the −35 box (left) in 109 of the TSSs with a mapped −10 element.

(C) Two versions of the YRTa motif were discovered by MEME in white plastids. A TCaTATat motif (left) was found upstream of 22 of the white TSSs and YATata (right) upstream of 151 (62%) TSSs.

[See online article for color version of this figure.]