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===Design Notes===
 
===Design Notes===
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By using the lin-4 gene pre-mRNA primary transcript F59G1.6 sequence found on WormBank, we obtained a complementary RNA trigger sequence. By inputting the minimum free energy structures for each of the switch and trigger combinations, NUPACK showed the possible structure, confirming that our selected trigger and toehold combination has a high probability of working.
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[[File:T--Lambert_GA--Lin4Megan.png|800px]]
 
[[File:T--Lambert_GA--Lin4Megan.png|800px]]

Latest revision as of 12:56, 21 October 2019


T7 C. elegans Trigger


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 159
    Illegal NotI site found at 6
    Illegal NotI site found at 153
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 69


Design Notes

By using the lin-4 gene pre-mRNA primary transcript F59G1.6 sequence found on WormBank, we obtained a complementary RNA trigger sequence. By inputting the minimum free energy structures for each of the switch and trigger combinations, NUPACK showed the possible structure, confirming that our selected trigger and toehold combination has a high probability of working.

T--Lambert GA--Lin4Megan.png


Figure 1: BLAST results for C. elegans lin-4 gene pre-mRNA primary transcript F59G1.6 (non-toxic)




T--Lambert GA--ToeholdMegan1.png


Figure 2: Complementary trigger RNA sequence derived from C. elegans lin-4 gene pre-mRNA primary transcript F59G1.6 (non-toxic)


Source

The lin-4 gene pre-mRNA primary transcript F59G1.6 (non-toxic) is native to the genome of C. elegans.

References