PrimeEditing
Prime Editing pegRNA Designer
pegRNA design tool with RTT/PBS pairing and edit evidence generation.
Plan pegRNAs for prime editing with RTT and PBS design, validation, and context visualization inside Helix Studio, a modern Genome IDE for genome engineering.
System of Record →Section 1
What the tool is
The pegRNA Designer turns desired edits into validated pegRNAs with RTT/PBS pairs sized to the change you want to introduce.
Section 2
Why scientists care
Prime editing design often lives in spreadsheets with manual RTT/PBS tweaks and risky copy/paste steps.
Section 3
How Helix solves it
Automatic RTT/PBS sizing based on edit distance and GC balance
Section 4
How the algorithm works
RTT/PBS candidates are enumerated with length sweeps, GC constraints, and melting estimates, then ranked by model implied priming stability.
Section 5
Try it in Helix Studio
Paste reference + edited sequences, generate pegRNAs, and review QC badges before exporting.
Section 6
FAQ
Do you support PE2, PE3, and PE5 setups?
Yes—choose the strategy and Helix proposes compatible nicking guides and offsets.
Can I fix RTT or PBS lengths?
Lock either length and Helix optimizes the other while keeping stability and edit reach in range.
Do you model indel byproducts?
We simulate likely outcomes and show model implied spectra (assumption bound) next to each pegRNA.