Coding

Part:BBa_K5159002:Design

Designed by: Tianyue WU   Group: iGEM24_HKUST   (2024-09-23)


Schizochytrium sp. ATCC 20888 PUFA synthase ORF_B with His-tag


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal XhoI site found at 1762
    Illegal XhoI site found at 2008
    Illegal XhoI site found at 2323
    Illegal XhoI site found at 2914
    Illegal XhoI site found at 3286
    Illegal XhoI site found at 4404
    Illegal XhoI site found at 5032
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 1117
    Illegal NgoMIV site found at 3961
    Illegal NgoMIV site found at 4861
    Illegal NgoMIV site found at 4894
    Illegal NgoMIV site found at 5434
    Illegal AgeI site found at 2488
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 1273
    Illegal BsaI site found at 3463
    Illegal BsaI site found at 5166
    Illegal BsaI.rc site found at 1195
    Illegal BsaI.rc site found at 1246
    Illegal BsaI.rc site found at 2011
    Illegal BsaI.rc site found at 2929
    Illegal BsaI.rc site found at 4006
    Illegal BsaI.rc site found at 4471
    Illegal BsaI.rc site found at 4606


Design Notes

We codon-optimized the sequence for expression in chassis Yarrowia lipolytica by referencing the organism's codon bias. To make the part RCF[10]-compatible, we also removed all EcoRI, XbaI, SpeI and PstI cut sites from the sequence by codon-optimization.


Source

This part comes from the genome of Schizochytrium sp. ATCC 20888. In our project, it was codon-optimized for Yarrowia lipolytica, divided into 3 fragments and synthesized by commercial provider Integrated DNA Technology (IDT)

References