Difference between revisions of "Part:BBa K4432006:Design"

 
 
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===Design Notes===
 
===Design Notes===
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to do
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Designed using the web tool developed by To ''et al.'' [2] with the following parameters:
  
 +
Target RNA sequence: PANTR1_v2 (GenBank NR_131233)
  
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Loop sequence: Custom: GGACUUUAGAACAGAGGAGAUAAAGAUG
 +
 +
Trigger length: 120
 +
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Toehold domain length: 35
 +
 +
Maximum toehold domain base pairs: 5
 +
 +
Working temperature (°C): 37
 +
 +
Promoter sequence: T7
 +
 +
Linker sequence: AACCUGGCGGCAGCGCAAAAG
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 +
RE site for cloning: --
  
 
===Source===
 
===Source===
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===References===
 
===References===
 +
[1] Green AA, Silver PA, Collins JJ, Yin P. Toehold switches: de-novo-designed regulators of gene expression. Cell (2014) 159, 925-939.
 +
 +
[2] 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.
 +
 +
[3] Pardee K, Green AA, Takahashi MK, Braff D, Lambert G, Lee JW, Ferrante T, Ma D, Donghia N, Fan M, Daringer NM, Bosch I, Dudley DM, O'Connor DH, Gehrke L, Collins JJ. Rapid, low-cost detection of Zika virus using programmable biomolecular components. Cell (2016) 165, 1255-1266.
 +
 +
[4] Huang A, Nguyen PQ, Stark JC, Takahashi MK, Donghia N, Ferrante T, Dy AJ, Hsu KJ, Dubner RS, Pardee K, Jewett MC, Collins JJ. BioBits™ Explorer: A modular synthetic biology education kit. Sci Adv (2018) 4, eaat5105.

Latest revision as of 09:12, 26 September 2022


PANTR1 Toehold Switch Sensor 06


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

[2] 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.

[3] Pardee K, Green AA, Takahashi MK, Braff D, Lambert G, Lee JW, Ferrante T, Ma D, Donghia N, Fan M, Daringer NM, Bosch I, Dudley DM, O'Connor DH, Gehrke L, Collins JJ. Rapid, low-cost detection of Zika virus using programmable biomolecular components. Cell (2016) 165, 1255-1266.

[4] Huang A, Nguyen PQ, Stark JC, Takahashi MK, Donghia N, Ferrante T, Dy AJ, Hsu KJ, Dubner RS, Pardee K, Jewett MC, Collins JJ. BioBits™ Explorer: A modular synthetic biology education kit. Sci Adv (2018) 4, eaat5105.