Team:Heidelberg/Modeling/miBSdesigner

(Difference between revisions)

Revision as of 12:09, 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

@@ Line 8: / Line 8: @@
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+div.wrapper {width: 320px; padding:15px; border-width:3px; margin:auto; border-style:solid; border-color:#11526f; height: 340px; text-align:center;}
-div.wrapper2 {width: 550px; padding:25px; border-width:5px; margin:auto; border-style:solid; border-color:#11526f; height: 550px; text-align:left; background-color:#ffaf58;}
+div.wrapper2 {width: 550px; padding:25px; border-width:5px; margin:auto; border-style:solid; border-color:#11526f; height: 550px; text-align:left; }
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