Part:BBa_M36024:Design

phiX174 gene A - mutated RBS's and start codons of B, K and C.

Assembly Compatibility:

• 10
  INCOMPATIBLE WITH RFC[10]

  Illegal PstI site found at 1402
  
• 12
  INCOMPATIBLE WITH RFC[12]

  Illegal PstI site found at 1402
  
• 21
  COMPATIBLE WITH RFC[21]
• 23
  INCOMPATIBLE WITH RFC[23]

  Illegal PstI site found at 1402
  
• 25
  INCOMPATIBLE WITH RFC[25]

  Illegal PstI site found at 1402
  Illegal NgoMIV site found at 1528
  
• 1000
  COMPATIBLE WITH RFC[1000]

Design Notes

Made only synonymous changes, and tried to keep the codon usage bias as similar as possible to wt.

Source

wt phiX174, then mutated by Jon Rodriguez and Adrian Sierra

References

Van der Avoort HG, Teertstra R, Versteeg R, Weisbeek PJ. Genes and regulatory sequences of bacteriophage phi X174. Biochim Biophys Acta. 1983 Oct 13;741(1):94–102.

F. Sanger, A. R. Coulson, T. Friedmann, G. M. Air, B. G. Barrell, N. L. Brown, J. C. Fiddes, C. A. Hutchison III, P. M. Slocombe, M. Smith, The nucleotide sequence of bacteriophage [phi]X174, Journal of Molecular Biology, Volume 125, Issue 2, 25 October 1978, Pages 225-246, ISSN 0022-2836, DOI: 10.1016/0022-2836(78)90346-7. (http://www.sciencedirect.com/science/article/pii/0022283678903467)

Grzegorz Kudla, Andrew W. Murray, David Tollervey, and Joshua B. Plotkin. Coding-Sequence Determinants of Gene Expression in Escherichia coli. Science 10 April 2009: 324 (5924), 255-258. [DOI:10.1126/science.1170160]

Calendar, Richard. "φX174 Et Al., the Microviridae." The Bacteriophages. New York: Plenum Pub., 1988. Print.

Fane, Bentley A., Karie L. Brentlinger, April D. Burch, Min Chen, Susan Hafenstein, Erica Moore, Christopher R. Novak, and Asako Uchiyama. "TheBacteriophages.org."TheBacteriophages.org. 2006. Web. 07 June 2011. <http://www.thebacteriophages.org/frames_0110.htm>.

phiX174 genome - Refseq: NC_001422 - http://www.ncbi.nlm.nih.gov/sites/entrez?Db=genome&Cmd=ShowDetailView&TermToSearch=10126