Team:Heidelberg/Modeling/miBSdesigner

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(Difference between revisions)

Revision as of 12:49, 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
<textarea name="NamA" id="NamA" class="variaresult" wrap=SOFT></textarea>
Sequence of primer 1
<textarea name="seqA" id="seqA" class="variaresult" wrap=SOFT></textarea>
Name of primer 2
<textarea name="NamB" id="NamB" class="variaresult" wrap=SOFT></textarea>
Sequence of primer 2
<textarea name="seqB" id="seqB" class="variaresult" wrap=SOFT></textarea>

@@ Line 130: / Line 130: @@
 <div class="reswrap2" id="resultdiv">
 		Name of primer 1<br>
-		<textarea name="NamA" id="NamA" rows="1" class="variaresult" cols="30" wrap=SOFT></textarea><br>
+		<textarea name="NamA" id="NamA" class="variaresult" wrap=SOFT></textarea><br>
 		Sequence of primer 1<br>
-		<textarea name="seqA" id="seqA" rows="1" class="variaresult" cols="30" wrap=SOFT></textarea><br>
+		<textarea name="seqA" id="seqA" class="variaresult" wrap=SOFT></textarea><br>
 		Name of primer 2<br>
-		<textarea name="NamB" id="NamB" rows="1" class="variaresult" cols="30" wrap=SOFT></textarea><br>
+		<textarea name="NamB" id="NamB" class="variaresult" wrap=SOFT></textarea><br>
 		Sequence of primer 2<br>
-		<textarea name="seqB" id="seqB" rows="1" class="variaresult" cols="30" wrap=SOFT></textarea><br>
+		<textarea name="seqB" id="seqB" class="variaresult" wrap=SOFT></textarea><br>
 </div>
 {{:Team:Heidelberg/Bottom}}