RNA

Part:BBa_K4432205:Design

Designed by: Paul Weimer   Group: iGEM22_Evry_Paris-Saclay   (2022-09-26)


PANTR1 Toehold Switch Trigger 05


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

Designed using the web tool developed by To et al. [3] with the following parameters:

Target RNA sequence: PANTR1_v2 (GenBank NR_131233)

Loop sequence: Custom: GGACUUUAGAACAGAGGAGAUAAAGAUG

Trigger length: 120

Toehold domain length: 35

Maximum toehold domain base pairs: 5

Working temperature (°C): 37

Promoter sequence: T7

Linker sequence: AACCUGGCGGCAGCGCAAAAG

RE site for cloning: --

Source

DNA synthesis

References

[1] Hassold S, Lowry PP 2nd, Bauert MR, Razafintsalama A, Ramamonjisoa L, Widmer A. DNA barcoding of Malagasy rosewoods: towards a molecular identification of CITES-listed Dalbergia species. PLoS One (2016) 11, e0157881.

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

[3] To AC, Chu DH, Wang AR, Li FC, Chiu AW, Gao DY, Choi CHJ, Kong SK, Chan TF, Chan KM, Yip KY. A comprehensive web tool for toehold switch design. Bioinformatics (2018) 34, 2862-2864.