Difference between revisions of "Part:BBa K2541301:Design"

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===Design Notes===
 
===Design Notes===
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When designing the sequence, you should consider its pairing with other bases, which may affect its free energy.
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The pseudoknot structure is important to the function of cold-inducible RNA-based thermosensors. We designed the thermosensor by changing base pairing, base pair position and GC content in the pseudoknot region.
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===Source===
 
===Source===
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The natural cspA gene sequence is from Escherichia coli. The sequence we used is the 5'UTR of cspA. And we incrase or decrease the base pairings and GC centent of this sequence. We synthesized this sequence from a synthesis company.
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The natural cspA gene sequence is from ''Escherichia coli''. The sequence we used is the 5'UTR of cspA. And we changed base pairing, base pair position and GC content of this sequence. We synthesized this sequence from a synthesis company.
  
 
===References===
 
===References===
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[1]Giuliodori A M, Di P F, Marzi S, et al. The cspA mRNA is a thermosensor that modulates translation of the cold-shock protein CspA.[J]. Molecular Cell, 2010, 37(1):21-33.
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[2]Breaker R R. RNA Switches Out in the Cold[J]. Molecular Cell, 2010, 37(1):1-2.
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[3]Kortmann J, Narberhaus F. Bacterial RNA thermometers: molecular zippers and switches.[J]. Nature Reviews Microbiology, 2012, 10(4):255-65.

Latest revision as of 15:47, 14 October 2018


Cold-inducible RNA-based thermosensor-1


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

The pseudoknot structure is important to the function of cold-inducible RNA-based thermosensors. We designed the thermosensor by changing base pairing, base pair position and GC content in the pseudoknot region.

Source

The natural cspA gene sequence is from Escherichia coli. The sequence we used is the 5'UTR of cspA. And we changed base pairing, base pair position and GC content of this sequence. We synthesized this sequence from a synthesis company.

References

[1]Giuliodori A M, Di P F, Marzi S, et al. The cspA mRNA is a thermosensor that modulates translation of the cold-shock protein CspA.[J]. Molecular Cell, 2010, 37(1):21-33.

[2]Breaker R R. RNA Switches Out in the Cold[J]. Molecular Cell, 2010, 37(1):1-2.

[3]Kortmann J, Narberhaus F. Bacterial RNA thermometers: molecular zippers and switches.[J]. Nature Reviews Microbiology, 2012, 10(4):255-65.