Coding

Part:BBa_K2050420:Design

Designed by: Muhammad Farhan Maruli   Group: iGEM16_UI-Indonesia   (2016-10-13)


Enhanced green fluorescent protein (EGFP) coding sequence (human-optimized)


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
    INCOMPATIBLE WITH RFC[1000]
    Illegal SapI.rc site found at 16


Design Notes

The amino acid sequence was entered into IDT's online codon optimization tool to obtain the first DNA sequence, which was subsequently run through several rounds of manual optimization. At each round, the sequence was run through GenScript's online rare codon analysis tool to evaluate the codon optimization index (CAI), frequency of rare codons, GC content and negative cis or repeat elements. The rounds of manual optimization aims to eliminate possible bacterial or mammalian promoters, AGG codons, Chi sites, ter sites, dem sites, polyadenylation sites, Pasteurellaceae or Neisseriaceae DNA uptake sequences, K12 methylation sites, TATA boxes, palindromes and splice sites.


Source

The amino acid sequence was obtained from www.uniprot.org (accession number C5MKY7); the DNA sequence is our own.

References