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. 2007 Feb 18;35(5):1649–1659. doi: 10.1093/nar/gkm046

Figure 3.

Figure 3.

LDI-BMH status of the leader transcripts with variable 3′ ends. (A) Electric mobility shift assay on a 0.25 × TBE acrylamide gel. Transcripts were incubated in TEN buffer (N), or denatured in formamide containing loading buffer (F). (B) The LDI-BMH status of the transcripts as calculated by Mfold. The ΔG values of the LDI and the BMH structure were calculated as described in the Materials and methods section and subtracted to obtain the ΔΔG. (C) Thermal melting profiles of the HIV-1 transcripts with variable 3′ ends. The temperature was increased from 25 to 90°C at a rate of 0.5°C/min, the A260 nm was measured with 0.1°C intervals. The transcript length and melting temperatures (Tm) of the transitions are indicated in the plots.