Difference between revisions of "Part:BBa K1677369:Design"
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Revision as of 07:18, 25 August 2015
MMTV Pseudoknot
Assembly Compatibility:
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE 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 AAATTCAAAAAACTTGTAAA 5' flanking sequence AAAGGTAAGGACTCAGGATT
The actual pseudoknot is: GGGGCAGUCCCCUAGCCCCACUCAAAAGGGGGAU (((((.[[[[[[[.)))))........]]]]]]] Estimated free energy: -25.93 kcal/mol
Source
It is extracted from the Mouse mammary tumor virus.
References
Staple, D. W., Butcher, S. E., Pseudoknots: RNA structures with diverse functions. PLoS biology 2005, 3, e213.