PE-Designer

PE-Designer designs prime editing guide RNAs (pegRNAs) for CRISPR prime editing by generating candidate target sequences, primer binding sites, reverse-transcription templates, and potential nicking guide RNAs to enable precise sequence insertions, deletions, and base conversions.

Key Features:

• PegRNA Design: Generates all possible target sequences, pegRNA extension sequences including primer binding site and reverse-transcription template, and candidate nicking guide RNA sequences.
• Interactive Visualization: Presents design results as interactive images to visualize pegRNA components and design parameters.
• Integration with PE-Analyzer: Links pegRNA design outputs with PE-Analyzer for downstream analysis of high-throughput sequencing data post-editing.

Scientific Applications:

• Targeted Sequence Editing: Enables design of pegRNAs for precise insertions, deletions, and base conversions using CRISPR prime editing.
• Functional Genomics: Supports gene function studies and disease modeling by enabling programmed sequence alterations.
• Therapeutic Development: Facilitates design of precise genome modifications relevant to developing therapeutic interventions.

Methodology:

Performs client-side computations using JavaScript to provide instant assessments of candidate pegRNAs without requiring large data uploads.