miRNAmotif

miRNAmotif predicts interactions between pre-miRNA precursors and RNA-binding proteins by identifying known and novel sequence motifs in pre-miRNAs from human, murine, and Arabidopsis thaliana.

Key Features:

• Prediction of Pre-miRNA-Protein Interactions: Identifies pre-miRNA precursors that contain sequence motifs recognized by diverse RNA-binding proteins to infer potential interactions involved in miRNA maturation.
• Database Integration: Uses a database of pre-miRNAs from human, murine, and Arabidopsis thaliana to support cross-species motif searches.
• Motif Prediction Capability: Predicts novel RNA-binding protein motifs from user-provided pre-miRNA sequences.
• Application Examples: Detects precursors containing motifs recognized by proteins including Lin28, MCPIP1, DGCR8, DDX1, and DDX17.

Scientific Applications:

• miRNA Biogenesis Research: Identification of sequence- or structure-dependent motifs recognized by regulatory proteins to study miRNA maturation.
• Cross-Species Comparative Studies: Comparative analysis of conserved and divergent pre-miRNA motifs across human, murine, and Arabidopsis thaliana.
• Discovery of Novel Interactions: Prediction of new motifs to reveal previously unrecognized RNA-binding proteins involved in miRNA processing.

Methodology:

Integrates known sequence motifs with input pre-miRNA sequences to predict RNA-binding protein interactions and to identify novel motifs.