Figure 3.

Consensus sequence and binding affinity of individual aptamer sequences. (A) Frequency of each nucleobase in the third-strand aligned to form a triple helix with the target. The consensus motif is indicated. The nucleotides that are conserved in all selected sequences are underlined. (B) Sequences of the triplex-forming regions covering the entire target. The number of the corresponding clones are indicated. Adenines are displayed in red. (C) EMSA. Increased concentration of oligonucleotides were incubated in the absence (lanes 1, 7, 13) or in the presence of 20 nM (lanes 2, 8, 14), 50 nM (lanes 3, 9, 15), 100 nM (lanes 4, 10, 16), 200 nM (lanes 5, 11, 17) or 500 nM (lanes 6, 12, 18) of third strand. (D) Quantification of oligonucleotides binding affinity.