Team:Heidelberg/Modeling/miBSdesigner

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<title>BS designer for miRNA</title>
<title>BS designer for miRNA</title>
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div.wrapper {width: 320px; padding:15px; border-width:5px; margin:auto; border-style:solid; border-color:#11526f; height: 340px; text-align:center; background-color:#ffaf58;}
div.wrapper {width: 320px; padding:15px; border-width:5px; margin:auto; border-style:solid; border-color:#11526f; height: 340px; text-align:center; background-color:#ffaf58;}
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div.reswrap2 {width: 550px; padding:25px; border-width:5px; margin:auto; border-style:solid; border-color:#11526f; height: 240px; text-align:left; background-color:#ffaf58; display:none; font-size:12pt;}
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div.reswrap2 {width: 550px; padding:25px; border-width:5px; margin:auto; border-style:solid; border-color:#11526f; text-align:left; background-color:#ffaf58; display:none; font-size:12pt; overflow:hidden;}
.variaresult {font-size: 12pt; color: #11526f; font-weight: bold;}
.variaresult {font-size: 12pt; color: #11526f; font-weight: bold;}
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Revision as of 01:33, 25 October 2010

BS designer for miRNA


Construction of microRNA binding sites
Sequence name

microRNA Sequence ( 5' -> 3')

Spacer (inert sequence)

Perfect Binding Site
Imperfect Binding Site with 4 nt bulge (9-12)
Personalized Binding Site

Seed sequence (1-8)
Customized MISMATCH position

Supplementary region
Customized MATCH positions (input numbers from 9 to 22)


Modify AU content
A in position -1
A in position 0
A in position 1
A in position 8
A in position 9
A in position 10


Sticky ends for integration in plasmid:
Customized: 5' 3'


Name of primer 1

Sequence of primer 1

Name of primer 2

Sequence of primer 2