Regulatory

Part:BBa_K3453014:Design

Designed by: Tristan Reif   Group: iGEM20_Evry_Paris-Saclay   (2020-10-04)


Rosewood DmMatK Toehold Switch 2.1


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 18
    Illegal BamHI site found at 59
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

designed using our internal toehold switch pipeline which calls NUPACK [2] and RBS Calculator for switch prediction and ranking [3]. For full details, visit the 'Model' page of our wiki.

Source

DNA synthesis

References

[1] Green AA, Silver PA, Collins JJ, Yin P. Toehold switches: de-novo-designed regulators of gene expression. Cell (2014) 159, 925-939.

[2] Zadeh JN, Steenberg CD, Bois JS, Wolfe BR, Pierce MB, Khan AR, Dirks RM, Pierce NA. NUPACK: Analysis and design of nucleic acid systems. Journal of Computational Chemistry (2011) 32, 170–173.

[3] Salis HM. The ribosome binding site calculator. Methods in Enzymology (2011) 498: 19–42.

[4] Kerpedjiev P, Hammer S, Hofacker IL. Forna (force-directed RNA): Simple and effective online RNA secondary structure diagrams. Bioinformatics (Oxford, England) (2015) 31, 3377–3379.