Scan piRNA target sites in your sequence

Input

Input your DNA (without introns) or spliced RNA sequence:

Specify your sequence name:

Specify coding sequence (CDS) region:

Whole input sequence
-
None

piRNA targeting rules

Number of mismatches allowed at seed region:
- number of non-GU pairs ≤
- number of GU pairs ≤

Number of mismatches allowed at non-seed region:
- number of non-GU pairs ≤
- number of GU pairs ≤

Total number of mismatches at seed & non-seed regions ≤

piRNA targeting score ≥

To examine piRNA sites in endogenous genes and to evaluate their effects in gene silencing, please visit piRTarBase.

Reference

If you make use of the pirScan webserver presented here, please cite the following articles:

Wu WS; Huang WC; Brown J; Zhang D; Song X; Chen H; Tu S; Weng Z; Lee HC, 2018 “pirScan, a webserver to predict piRNA targeting sites and to avoid transgene silencing in C. elegans” Nucleic Acids Res. doi: 10.1093/nar/gky277
Zhang D, Tu S, Stubna M, Wu WS, Huang WC, Weng Z, Lee HC. 2018 “The piRNA targeting rules and the resistance to piRNA silencing in endogenous genes”, Science. 359, 587-592