Difference between revisions of "Part:BBa K305001:Design"

(→‎Design Notes)
(→‎Design Notes)
Line 7: Line 7:
 
===Design Notes===
 
===Design Notes===
 
The RBS sequence used in this part can be found in several B. subtilis  genes and is known to efficiently initiate translation. The spacer sequence between the RBS and start codon originates form the B. subtilis wapA gene. The CDS was optimized for B. subtilis by the GenScript OptimumGeneTM software (see images).  
 
The RBS sequence used in this part can be found in several B. subtilis  genes and is known to efficiently initiate translation. The spacer sequence between the RBS and start codon originates form the B. subtilis wapA gene. The CDS was optimized for B. subtilis by the GenScript OptimumGeneTM software (see images).  
−
[[Image:C codon opt Groningen.jpg]][[C codon opt Groningen.jpg]]
+
[[Image:C codon opt Groningen.jpg|200px|thumb|left|Frequency of optimal codons before optimization. The x-axis 100 value is set for the codon with the highest usage frequency for a given amino acid in ''B. subtilis''.]][[C codon opt Groningen.jpg|200px|thumb|left|Frequency of optimal codons after optimization. The x-axis 100 value is set for the codon with the highest usage frequency for a given amino acid in B. subtilis.]]
  
 
===Source===
 
===Source===

Revision as of 18:00, 27 October 2010

Hydrophobic protein chaplin C (chpC)


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 349
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI.rc site found at 533


Design Notes

The RBS sequence used in this part can be found in several B. subtilis genes and is known to efficiently initiate translation. The spacer sequence between the RBS and start codon originates form the B. subtilis wapA gene. The CDS was optimized for B. subtilis by the GenScript OptimumGeneTM software (see images).

Frequency of optimal codons before optimization. The x-axis 100 value is set for the codon with the highest usage frequency for a given amino acid in B. subtilis.
200px|thumb|left|Frequency of optimal codons after optimization. The x-axis 100 value is set for the codon with the highest usage frequency for a given amino acid in B. subtilis.

Source

Ordered as construct from Mr. Gene after genomic sequence had been identified.

References

Claessen, D; Rink, R; de Jong, W et al. 2003. A novel class of secreted hydrophobic proteins is involved in aerial hyphae formation in Streptomyces coelicolor by forming amyloid-like fibrils. Genes Dev 17 1714-1726