Coding

Part:BBa_K5159003:Design

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


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


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NotI site found at 2354
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 970
    Illegal XhoI site found at 100
    Illegal XhoI site found at 466
    Illegal XhoI site found at 913
    Illegal XhoI site found at 2916
    Illegal XhoI site found at 2983
    Illegal XhoI site found at 3268
    Illegal XhoI site found at 3343
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 589
    Illegal NgoMIV site found at 619
    Illegal NgoMIV site found at 1711
    Illegal NgoMIV site found at 2257
    Illegal NgoMIV site found at 3199
    Illegal NgoMIV site found at 3232
    Illegal NgoMIV site found at 3445
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 2322
    Illegal BsaI site found at 3504
    Illegal BsaI site found at 4150
    Illegal BsaI.rc site found at 460
    Illegal BsaI.rc site found at 3121
    Illegal BsaI.rc site found at 4126
    Illegal BsaI.rc site found at 4462
    Illegal SapI.rc site found at 2463


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 2 fragments and synthesized by commercial provider Integrated DNA Technology (IDT).

References