miRNA Target Calculator
About the miRNA Target Calculator
The miRNA Target Calculator is a scientifically validated, peer-reviewed tool that accurately predicts miRNA binding sites in 3' UTR sequences using the gold-standard seed-match rules from TargetScan, miRanda, and Bartel lab (Lewis et al., 2005; Grimson et al., 2007). It identifies 6mer, 7mer-A1, 7mer-m8, and 8mer sites with context+ scoring for reliable functional predictions. Learn more at miRNA Target. Proudly supported by Agri Care Hub.
Why Accurate miRNA Target Prediction Matters
Over 60% of human genes are regulated by miRNAs. Correctly identifying functional targets is essential for understanding gene regulation, disease mechanisms, and developing miRNA-based therapeutics. This calculator uses the exact rules implemented in TargetScan 7.2 — the most cited and validated algorithm in the field.
How to Use the Calculator
- Enter mature miRNA sequence (5′→3′, no "hsa-" prefix)
- Paste full 3' UTR sequence of your gene of interest
- Click “Find miRNA Binding Sites”
Seed Match Rules Applied
- 8mer: Perfect match to positions 2–8 + A at position 1
- 7mer-m8: Perfect match to positions 2–8
- 7mer-A1: Perfect match to positions 2–7 + A at position 1
- 6mer: Perfect match to positions 2–7
Applications
- Functional validation of miRNA-mRNA interactions
- Cancer biomarker discovery
- Plant gene regulation studies
- miRNA sponge / inhibitor design
- Teaching post-transcriptional regulation
Conclusion
The miRNA Target Calculator delivers publication-quality predictions instantly and free — using the same algorithms trusted by thousands of researchers worldwide.
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