RNA

Part:BBa_K1677391:Design

Designed by: Isabelle Capell-Hattam   Group: iGEM15_BABS_UNSW_Australia   (2015-08-25)


IBV Pseudoknot


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
    COMPATIBLE WITH RFC[1000]


Design Notes

All start codons had to be removed from the pseudoknot.

20 base pairs from the viral DNA flank either side of the pseudoknot region.

3' flanking sequence AGAATTATTTAAACGGGTAC

5' flanking sequence TTTGAGGTTTGTAATAAGGA

The actual pseudoknot is:

GGGGTAGCAGTGAGGCTCGGCTGATACCCCTTGCTAGTGGGTGTGACCCTGATATTGTAAAGCGAGCC

((((((.((((..[[[[)))).))))))((((....((((...)))).......))))..]]]]

Estimated free energy: -32.02 kcal/mol



Source

From the infectious bronchitis virus.

References