RNAfdl is a highly flexible tool for drawing RNA secondary structures. Secondary structures can be visualized as classical secondary structure plot, circle plot, linear plot or mountain plot. RNAfdl allows manual editing and several drawing styles, as well as a fully automated conjugate gradients minimization approach to draw more complex structures without user interaction. In addition, RNAfdl allows you to incorporate non-canonical base pairs into drawings.
:: MORE INFORMATION
RNA secondary structure diagrams for very large molecules: RNAfdl.
Hecker N, Wiegels T, Torda AE.
Bioinformatics. 2013 Nov 15;29(22):2941-2. doi: 10.1093/bioinformatics/btt496.