Fig. 3. Dependence of the intermolecular ligation efficiency on the length of complementary part (DNA/RNA heteroduplex) on the 5′-phosphate side of the nick. On the 3′-OH side of the nick, RNA/RNA duplex is formed. (A) The sequences of RNA (blue) and DNA (red). DNA10a-8 is a 10-nt linear DNA whose complementary part with the 5′-phosphate side of L-21 is 8-nt. (B) Denaturing PAGE (12%) for the ligation at 25 °C for 12 h. Lane 1, L-21 only. Lanes 2, 3, 4, 5 and 6: intermolecular ligation of L-21 with DNA10a-0, DNA10a-2, DNA10a-4, DNA10a-6 and DNA10a-8 by Rnl2, respectively. [RNA] = 1 μM, [DNA] = 2 μM and [Rnl2] = 0.4 U μL−1 in 1× buffer.
