Difference between revisions of "Part:BBa K1323007:Design"
| (4 intermediate revisions by 2 users not shown) | |||
| Line 1: | Line 1: | ||
__NOTOC__ | __NOTOC__ | ||
| − | |||
| − | + | [[File:sRNA Binding3.png]] | |
| − | |||
| − | + | Targeting site of YFP. | |
| − | + | ||
| + | sRNA 3 targets 28 bp downstream from the start codon of the YFP construct. This sequence has a binding energy of -30.3 kcal/mol as determined using DINAMelt software (http://mfold.rna.albany.edu/?q=DINAMelt/Two-state-melting). For effective binding, sRNA should have a binding energy between -30 kcal/mol to -40 kcal/mol (Yoo et al., 2013). We aligned the sRNA 3 sequence with other constructs and the ATCC 12228 genome to determine the highest binding energy for non-specific RNA binding, which is -13.03 kcal/mol. This shows that sRNA 3 binds more specifically to YFP and should not interfere with other gene expressions in our system. | ||
| − | |||
| − | + | <partinfo>BBa_K1323007 short</partinfo> | |
| − | + | <partinfo>BBa_K1323007 SequenceAndFeatures</partinfo> | |
Latest revision as of 20:07, 17 October 2014
Targeting site of YFP.
sRNA 3 targets 28 bp downstream from the start codon of the YFP construct. This sequence has a binding energy of -30.3 kcal/mol as determined using DINAMelt software (http://mfold.rna.albany.edu/?q=DINAMelt/Two-state-melting). For effective binding, sRNA should have a binding energy between -30 kcal/mol to -40 kcal/mol (Yoo et al., 2013). We aligned the sRNA 3 sequence with other constructs and the ATCC 12228 genome to determine the highest binding energy for non-specific RNA binding, which is -13.03 kcal/mol. This shows that sRNA 3 binds more specifically to YFP and should not interfere with other gene expressions in our system.
sRNA (3): YFP-targeting molecule
Assembly Compatibility:
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21INCOMPATIBLE WITH RFC[21]Illegal XhoI site found at 142
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]