RNA

Part:BBa_K4811007:Design

Designed by: Kasper Krunderup Jakobsen   Group: iGEM23_DTU-Denmark   (2023-09-14)


TMS(Kan1)


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal EcoRI site found at 26
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal EcoRI site found at 26
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal EcoRI site found at 26
    Illegal XhoI site found at 33
    Illegal XhoI site found at 69
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal EcoRI site found at 26
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal EcoRI site found at 26
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

The RNA has to fold as a tRNA would. Unfortunately, the part could not be RFC10 compatible, since the kanamycin aptamer has an EcoRI site.


Source

The part was developed by Avishek Paul during their PHD thesis, see the publication "Modular and Versatile Trans-Encoded Genetic Switches", A. Paul, E. M. Warszawik, M. Loznik, A. J. Boersma, A. Herrmann, Angew. Chem. Int. Ed. 2020, 59, 20328.


References

Kwon M, Chun SM, Jeong S, Yu J. In vitro selection of RNA against kanamycin B. Mol Cells. 2001 Jun 30;11(3):303-11. PMID: 11459219.