circPrimer2.0

circPrimer2.0 annotates circular RNAs and predicts open reading frames (ORFs), internal ribosomal entry sites (IRESs), and N6-methyladenosine (m6A) modification sites to support identification of potential peptide-coding circRNAs and study of cap-independent translation.

Key Features:

• Annotation of circRNAs: Provides comprehensive annotation of circular RNAs.
• ORF prediction: Predicts small open reading frames (ORFs) within circRNAs to assess protein-coding potential.
• IRES prediction: Identifies potential internal ribosomal entry sites (IRESs) that may enable cap-independent translation.
• m6A site identification: Predicts N6-methyladenosine (m6A) modification sites associated with regulation of circRNA translation.
• Implementation: Implemented as Java-based software.

Scientific Applications:

• Functional analysis of circRNAs: Enables exploration of circRNA roles, particularly their potential to be translated into peptides via cap-independent mechanisms.
• Prioritization for experimental validation: Provides computational predictions of ORFs, IRESs, and m6A sites to guide selection of candidate circRNAs for laboratory follow-up.

Methodology:

Performs sequence-based analysis using algorithms to annotate circRNAs and predict ORFs, IRESs, and N6-methyladenosine (m6A) sites.