snoStrip

snoStrip annotates small nucleolar RNAs (snoRNAs) in fungal genomes and predicts their putative targets to support comparative and functional genomics analyses.

Key Features:

• Automated annotation pipeline: Provides an automated pipeline tailored for comparative genomics-based snoRNA annotation in fungal genomes.
• Sequence conservation analysis: Analyzes conserved sequences across species to identify candidate snoRNAs preserved by evolution.
• Canonical box motif detection: Detects canonical box motifs characteristic of snoRNAs to pinpoint likely snoRNA regions.
• Secondary structure prediction: Predicts secondary structures typical of snoRNAs to refine and support annotations.
• Putative target prediction: Predicts potential RNA targets of snoRNAs to infer functional roles, including modifications of ribosomal RNA.

Scientific Applications:

• Comparative genomics: Cross-species identification and annotation of snoRNAs in fungal genomes.
• Evolutionary studies: Analysis of snoRNA conservation and divergence across fungal species.
• Functional genomics: Linking snoRNAs to target RNAs and potential roles in RNA modification and function.
• RNA-mediated regulatory mechanism exploration: Investigation of snoRNA-guided modification processes and regulatory interactions through predicted targets and structures.

Methodology:

Automated pipeline that analyzes sequence conservation across species, detects canonical box motifs, predicts snoRNA secondary structures, and predicts putative snoRNA targets.