Difference between revisions of "Part:BBa K4770021:Design"

 
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<partinfo>BBa_K4770021 SequenceAndFeatures</partinfo>
  
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===Source of this part===
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Original PPSAD sequence: BBa_K4770007
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Original Cp sequence: BBa_K4770010
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Original GS sequence: BBa_K4770004
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Original F2A sequence: BBa_K4770012
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Original NanoLuc sequence: BBa_K4770011
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Original TPSAD sequence: BBa_K4770008
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===Design considerations===
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We performed Chlamydomonas reinhardtii's domestication for GS sequence.
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This process includes a reduction of the GC% content to make the sequence suitable for commercial synthesis while maintaining it high enough to fit Chlamydomonas reinhardtii's codon usage. This was done using our optimizing software (see AlgaGenix's wiki for additional information).
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Moreover, recognition sites for BbsI and BsaI were eliminated, changing said codons with synonymous ones.
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Besides, we also added an intron to perform what is known as intron-mediated enhancement (IME), which studies show aids with stable high-level expression of a foreign gene (Lumbreras et al., 1998)
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AlgaGenix’s Level 1s are designed to have the same structure and not having to build different pieces with different positions for each gene.

Revision as of 09:16, 12 October 2023


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal EcoRI site found at 2473
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal EcoRI site found at 2473
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal EcoRI site found at 2473
    Illegal BglII site found at 2811
    Illegal BamHI site found at 2117
    Illegal XhoI site found at 2329
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal EcoRI site found at 2473
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal EcoRI site found at 2473
    Illegal NgoMIV site found at 1675
    Illegal NgoMIV site found at 2627
  • 1000
    COMPATIBLE WITH RFC[1000]

Source of this part

Original PPSAD sequence: BBa_K4770007 Original Cp sequence: BBa_K4770010 Original GS sequence: BBa_K4770004 Original F2A sequence: BBa_K4770012 Original NanoLuc sequence: BBa_K4770011 Original TPSAD sequence: BBa_K4770008

Design considerations

We performed Chlamydomonas reinhardtii's domestication for GS sequence. This process includes a reduction of the GC% content to make the sequence suitable for commercial synthesis while maintaining it high enough to fit Chlamydomonas reinhardtii's codon usage. This was done using our optimizing software (see AlgaGenix's wiki for additional information). Moreover, recognition sites for BbsI and BsaI were eliminated, changing said codons with synonymous ones. Besides, we also added an intron to perform what is known as intron-mediated enhancement (IME), which studies show aids with stable high-level expression of a foreign gene (Lumbreras et al., 1998) AlgaGenix’s Level 1s are designed to have the same structure and not having to build different pieces with different positions for each gene.