Primers & oligos

siRNA / shRNA Designer

Design siRNA duplexes against an mRNA target using the established Reynolds (2004) 8-criteria score and the Ui-Tei (2004) rules, plus the siDirect seed-duplex Tm off-target flag (≥21.5 °C, computed on siDirect's own RNA/RNA scale: Freier 1986 nearest-neighbor parameters, helix initiation A = −10.8, CT = 100 µM, 100 mM Na⁺). Returns ranked candidates with sense/guide oligos (with UU 3' overhangs) and, per candidate, a ready shRNA cassette (sense–loop–antisense–Pol III terminator). Heuristic sequence rules only — no RNA-folding accessibility model and no transcriptome-wide off-target search.

post/sirna_design

Request

  • Base URL: https://seqbench.com/api/v1
  • URL: https://seqbench.com/api/v1/sirna_design
  • Auth: none required

Request body

targetstring required

Nucleotide sequence (raw or FASTA; IUPAC accepted).

minReynoldsinteger

Minimum Reynolds score (0–8) to keep; falls back to best-ranked if none qualify.

shRnaLoopstring

Loop sequence used when assembling the shRNA cassette.

Response

Tool ran successfully.

okunknown required
toolstring required

The tool slug that ran.

resultobject required

Tool-specific output object. Its shape depends on the tool — call GET /{tool} or see the docs for each tool's fields.

Example response

{
  "provenance": {
    "apiVersion": "1.1.0"
  }
}

Changes

No recorded changes to this operation across all 1 revision of this API.