Bridge RNAs are a central component of the IS110 bridge recombination system, providing a bispecific, modular, and reprogrammable guide that specifies both target and donor DNA sequences to be recombined. To facilitate the adoption and implementation of this unique system for genome design, this tool enables the design of bridge RNAs that can direct the recombination of almost any target and donor sequence when used in combination with their cognate IS621 bridge recombinase.
Given 14 nt target and donor sequences, the tool will return a 177 nt IS621 bridge RNA with appropriately reprogrammed target and donor binding loops, including left/right target and donor guides (Durrant, Perry et al. Nature 2024) and handshake guides (Hiraizumi et al. Nature 2024). This tool takes important design principles into account and flags sequences that do not pass these filters. Additional features will be coming soon.
Click here to use the tool.
Explore the code and documentation on Github.
Click here to read our blog post to learn more about the bridge recombination system.
Plasmids for bridge recombination can be found at Addgene.