Coding

Part:BBa_M36362:Design

Designed by: Will Connors, Ethan Li, and Shirbi Ish-Shalom   Group: Stanford BIOE44 - S11   (2013-10-25)


DbjA Haloalkane Dehalogenase


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal EcoRI site found at 379
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal EcoRI site found at 379
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal EcoRI site found at 379
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal EcoRI site found at 379
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal EcoRI site found at 379
    Illegal NgoMIV site found at 895
    Illegal AgeI site found at 624
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal SapI site found at 685


Design Notes

The amino acid sequence was backtranslated through Gene Designer's genetic algorithm (Maximum Generations: 100; Maximum Mutation Rate: 0.05; Minimum Best Individual Selection Rate: 0.9; Population Size: 50; Number of Progeny: 25) into a codon set optimized for Escherichia coli K12. This algorithm was given additional parameters to avoid BbsI, BsmBI, and BsaI restriction sites (at a weight of 1), hairpins (at a weight of 1), and repeats of at least 10 bp (at a weight of 1). A TAA stop codon was then added at the end of the resulting DNA sequence.


Source

This part was sourced from the genomic sequence of the soil bacterium Bradyrhizobium japonicum USDA110, at Accession NP_767727 and Gene ID 27376198. No mutations were made.

References