Difference between revisions of "Part:BBa K3328010"

 
 
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binding to toehold switch (Bba_K3328008) to express the downstream gene  
 
binding to toehold switch (Bba_K3328008) to express the downstream gene  
  
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The stability of RNA is a key factor affecting the mechanism of its interaction. Therefore, we hope to optimize the ON/OFF ratio of the toehold switch by improving the stability of trigger RNA. After consulting many pieces of literature, we learned that adding hairpin structure at the 5 'end of RNA could prevent the degradation mediated by RNase, thus improving the stability of RNA. Therefore, we tried to add the hairpin structure at the 5' end of triggers. We used NUPACK and RNAfold to analyze the structure of the trigger with the 5’ end hairpin, and then used NUPACK to analyze the combination of triggers with the 5’ end hairpin and switches.
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===Usage and Biology===
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https://2020.igem.org/wiki/images/thumb/b/b2/T--OUC-China--result_fig11.jpg/752px-T--OUC-China--result_fig11.jpg
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(A) The secondary structure of 5’ hairpins analyzed using NUPACK. (B) The secondary structure of 5’ hairpins combining with trigger analyzed using NUPACK.
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<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
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<partinfo>BBa_K3328010 SequenceAndFeatures</partinfo>
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<partinfo>BBa_K3328008 SequenceAndFeatures</partinfo>
  
  
 
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===Functional Parameters===
 
===Functional Parameters===
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<partinfo>BBa_K3328010 parameters</partinfo>
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<partinfo>BBa_K3328008 parameters</partinfo>
 
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Latest revision as of 09:25, 27 October 2020


trigger of toehold

binding to toehold switch (Bba_K3328008) to express the downstream gene

The stability of RNA is a key factor affecting the mechanism of its interaction. Therefore, we hope to optimize the ON/OFF ratio of the toehold switch by improving the stability of trigger RNA. After consulting many pieces of literature, we learned that adding hairpin structure at the 5 'end of RNA could prevent the degradation mediated by RNase, thus improving the stability of RNA. Therefore, we tried to add the hairpin structure at the 5' end of triggers. We used NUPACK and RNAfold to analyze the structure of the trigger with the 5’ end hairpin, and then used NUPACK to analyze the combination of triggers with the 5’ end hairpin and switches.

752px-T--OUC-China--result_fig11.jpg

(A) The secondary structure of 5’ hairpins analyzed using NUPACK. (B) The secondary structure of 5’ hairpins combining with trigger analyzed using NUPACK.




Sequence and Features


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]