Difference between revisions of "Part:BBa K1323008:Design"

Revision as of 20:43, 17 October 2014

sRNA control for S. epidermidis: targets the non-coding region

This is a control sRNA that targets a non-coding region in the genome of S.epidermidis (2314773-2314796) which is a intergenic region that is downstream of two genes on two different strands. It contains binding energy of only -7.8 kcal/mol to YFP gene as determined using DINAMelt software (http://mfold.rna.albany.edu/?q=DINAMelt/Two-state-melting). For effective binding, sRNA must have binding energy between -30 kcal/mol to -40 kcal/mol (Yoo et al., 2013). This shows that control sRNA cannot effectively bind YFP and it serves as a control which allows us to determine if production of sRNA places a metabolic load on the organism (Dokyun et al., 2013).

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
INCOMPATIBLE WITH RFC[21]
Illegal XhoI site found at 138
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

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 __NOTOC__
 <partinfo>BBa_K1323008 short</partinfo>
+This is a control sRNA that targets a non-coding region in the genome of ''S.epidermidis'' (2314773-2314796) which is a intergenic region that is downstream of two genes on two different strands. It contains binding energy of only -7.8 kcal/mol to YFP gene as determined using DINAMelt software (http://mfold.rna.albany.edu/?q=DINAMelt/Two-state-melting). For effective binding, sRNA must have binding energy between -30 kcal/mol to -40 kcal/mol (Yoo et al., 2013). This shows that control sRNA cannot effectively bind YFP and it serves as a control which allows us to determine if production of sRNA places a metabolic load on the organism (Dokyun et al., 2013).
 <partinfo>BBa_K1323008 SequenceAndFeatures</partinfo>