Team:Heidelberg/Modeling/miBSdesigner

From 2010.igem.org

(Difference between revisions)
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<style type="text/css">
<style type="text/css">
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.wrapper2 {width: 550px; padding:25px; border-width:5px; margin:auto; border-style:solid; border-color:#11526f; height: 550px; text-align:left; background-color:#ffaf58;}
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div.wrapper2 {width: 550px; padding:25px; border-width:5px; margin:auto; border-style:solid; border-color:#11526f; height: 950px; text-align:left; background-color:#ffaf58;}
div.title {text-indent:30px;}
div.title {text-indent:30px;}
div.option {text-indent:50px; white-space:pre-wrap;}
div.option {text-indent:50px; white-space:pre-wrap;}
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div.reswrap2 {width: 550px; padding:25px; border-width:5px; margin:auto; border-style:solid; border-color:#11526f; height: 140px; text-align:left; background-color:#ffaf58; display:none;}
div.reswrap2 {width: 550px; padding:25px; border-width:5px; margin:auto; border-style:solid; border-color:#11526f; height: 140px; text-align:left; background-color:#ffaf58; display:none;}
</style>
</style>
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<script type="text/javascript" src="http://2010.igem.org/wiki/images/2/24/Final_code_miBS_HD2010.txt"> </script>
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<script type="text/javascript" src="2010.igem.org/wiki/images/2/24/Final_code_miBS_HD2010.txt"></script>
</head>
</head>
     <body>
     <body>
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<br>
<br>
<div class="wrapper2">
<div class="wrapper2">
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<input name="quality" value="perfect" onclick="chMd()" checked="checked" type="radio">
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<input name="quality" value="perfect" onchange="chMd()" checked="checked" type="radio">
<span style="font-size: 18.0px;">
<span style="font-size: 18.0px;">
Perfect Binding Site </span>
Perfect Binding Site </span>
<br>
<br>
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<input name="quality" value="bulge" onclick="chMd()" type="radio">
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<input name="quality" value="bulge" onchange="chMd()" type="radio">
<span style="font-size: 18.0px;">
<span style="font-size: 18.0px;">
Imperfect Binding Site with 4 nt bulge (9-12) </span>
Imperfect Binding Site with 4 nt bulge (9-12) </span>
<br>
<br>
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<input name="quality" value="personal" onclick="chMd()" type="radio">
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<input name="quality" value="personal" onchange="chMd()" type="radio">
<span style="font-size: 18.0px;">
<span style="font-size: 18.0px;">
Personalized Binding Site </span>
Personalized Binding Site </span>
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<div class="optionl"><input name="AU" value="-1" type="checkbox">A in position -1</div>
<div class="optionl"><input name="AU" value="-1" type="checkbox">A in position -1</div>
<div class="optionr"><input name="AU" value="0" type="checkbox">A in position 0                    </div>
<div class="optionr"><input name="AU" value="0" type="checkbox">A in position 0                    </div>
-
<div class="clear">
 
<div class="optionl"><input name="AU" value="1" disabled="disabled" type="checkbox">A in position 1</div>
<div class="optionl"><input name="AU" value="1" disabled="disabled" type="checkbox">A in position 1</div>
<div class="optionr"><input name="AU" value="8" disabled="disabled" type="checkbox">A in position 8                    </div>
<div class="optionr"><input name="AU" value="8" disabled="disabled" type="checkbox">A in position 8                    </div>
-
<div class="clear">
 
<div class="optionl"><input name="AU" value="9" disabled="disabled" type="checkbox">A in position 9</div>
<div class="optionl"><input name="AU" value="9" disabled="disabled" type="checkbox">A in position 9</div>
<div class="optionr"><input name="AU" value="10" disabled="disabled" type="checkbox">A in position 10                  </div> <br>
<div class="optionr"><input name="AU" value="10" disabled="disabled" type="checkbox">A in position 10                  </div> <br>
-
<div class="clear">
 
<br>
<br>
<div class="option"><span style="font-size: 18.0px; text-decoration: underline;">Sticky ends for integration in plasmid: </span></div>
<div class="option"><span style="font-size: 18.0px; text-decoration: underline;">Sticky ends for integration in plasmid: </span></div>
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</center>
</center>
<br>
<br>
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</div>
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</form>
</form>
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<div class="clear">
 
<br>
<br>
<div class="reswrap2" id="resultdiv">
<div class="reswrap2" id="resultdiv">
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<span>Sequence of primer 2</span><br>
<span>Sequence of primer 2</span><br>
<span id="seqB" style="font-size: 18.0px; color: #11526f; font-weight: bold;"></span><br>
<span id="seqB" style="font-size: 18.0px; color: #11526f; font-weight: bold;"></span><br>
 +
</div>
</div>
</div>
</body>
</body>

Revision as of 15:35, 24 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