CRISPR-TE

CRISPR-TE designs single guide RNAs (sgRNAs) targeting transposable elements (TEs) in the human and mouse genomes to enable precise manipulation and study of TE function.

Key Features:

• Comprehensive sgRNA identification: Identifies all potential sgRNAs for TEs with coverage at both single-copy and subfamily levels.
• TE-targeting optimization: Optimized specifically for designing sgRNAs that target transposable elements rather than gene-centric targets.
• Repetitive/high-copy handling: Addresses sequence repetitiveness and high copy numbers of TEs in sgRNA selection.
• Subfamily-level targeting: Enables generation of sgRNAs tailored to specific TE subfamilies and to evolutionarily young TEs with conserved sequences.
• Genome scope: Tailored to the human and mouse genomes.
• CRISPR/Cas compatibility: Produces sgRNAs intended for use with CRISPR/Cas systems for precise genome editing.

Scientific Applications:

• Functional analysis of TEs: Enables experimental manipulation of TEs to study their roles in genome stability and gene regulation.
• Evolutionary and dynamic studies: Facilitates targeting of young and conserved TE subfamilies to investigate TE dynamics and evolutionary significance.
• Model organism experiments: Supports targeted TE experiments in human and mouse models.

Methodology:

Leverages CRISPR/Cas system capabilities and systematically identifies sgRNAs that efficiently target transposable elements, addressing repetitive sequences and high copy numbers and generating sgRNAs tailored to specific TE subfamilies for human and mouse genomes.