PROpeg

Scope & Purpose

Prime editing enables precise nucleotide-level genome modifications without inducing double-strand breaks. The technology depends on a carefully engineered guide RNA — the pegRNA — whose secondary structure, primer-binding site (PBS), reverse-transcription (RT) template, and 3' protective elements all must be tuned for the target locus. PROpeg removes that tuning burden:

  • Generates plant-optimized pegRNA candidates from a wildtype-vs-edited sequence pair.
  • Ranks candidates against PAM, GC, Tm, and PE-window constraints in one pass.
  • Predicts in-vivo editing efficiency.
  • Computes optimal nucleotide linkers for engineered designs.
  • Renders secondary-structure views for every variant in the browser.
Designed for plants: Default scaffold sequences, primer presets (OsU3, TaU3, TaU6, pHn-Cas9-V2), and codon-usage tables target monocot and dicot crops. The same algorithms work on any eukaryotic locus, but the defaults assume a plant-editing context.

Publication & Citation

PROpeg: title of the paper title of the paper title of the paper title of the paper title of the paper title of the paper

Author Names in APA style

Journal Name, Volume XX, Issue X

Developed By

ICAR — Central Rice Research Institute (CRRI), Cuttack

ICAR — Indian Agricultural Statistics Research Institute (IASRI), New Delhi

Released under the MIT License. Bundled third-party tools retain their original licenses (pegLIT — BSD 3-Clause, PRIDICT2 — MIT).