siDirect version 2.1 highly effective, target specific siRNA online design site. Help

or Paste in a nucleotide sequence:

Options:

Functional siRNA selection algorithm by:   ?

Ui-Tei et al., Nucleic Acids Res 32, 936-948 (2004) Link
Reynolds et al., Nat Biotechnol 22, 326-330 (2004) Link
Amarzguioui et al., BBRC 316, 1050-1058 (2004) Link

use combined rule:
Ui-Tei + Reynolds + Amarzguioui
Ui-Tei + Reynolds × Amarzguioui
Ui-Tei × Reynolds × Amarzguioui

Minimization of seed-dependent off-target effects   ?

Seed-duplex stability: Max Tm °C
     (for reducing seed-dependent off-target effect)
     Ui-Tei et al., Nucleic Acids Res 36, 7100-7109 (2008) Link

Specificity check:
     Hide less-specific siRNAs
     Show number of off-target hits within three mismatches

Other options

Target range: from to

Avoid contiguous G's or C's nt or more (for chemically synthesized siRNA)
Avoid contiguous A's or T's nt or more (for shRNA vectors with pol III promoter)

GC content: from % to %

Custom pattern: ?
Exclude pattern:


     Only show siRNAs that match all checked criteria


siDirect v2.1 | Last modified on Oct 23, 2024.
Previsous version: siDirect v2.0