Team:Heidelberg/Modeling/miBSdesigner

From 2010.igem.org

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<style type="text/css">
.wrapper {width: 260px; text-align:center;}
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<div class="t1">
<div class="t1">
Construction of microRNA binding sites </div><br>
Construction of microRNA binding sites </div><br>
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<div style="width:350px; text-align:right;"><span class="help"><a href="#">?</a><span></div>
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<div style="width:350px; text-align:right;"><span class="help"><a href="https://2010.igem.org/Team:Heidelberg/Modeling/trainingset#Input" target="_blank" title="Input help">?</a><span></div>
<div class="largetext" style="width:450px;">
<div class="largetext" style="width:450px;">
Sequence name<br>
Sequence name<br>
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<div class="largetext" style="width:400px;">
<div class="largetext" style="width:400px;">
<input name="quality" value="perfect" onchange="chMd()" checked="checked" type="radio">
<input name="quality" value="perfect" onchange="chMd()" checked="checked" type="radio">
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Perfect Binding Site <span class="help" style="float:right;"><a href="#">?</a></span><br>
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Perfect Binding Site <br>
<input name="quality" value="bulge" onchange="chMd()" type="radio">
<input name="quality" value="bulge" onchange="chMd()" type="radio">
Imperfect Binding Site with 4 nt bulge (9-12)<br>
Imperfect Binding Site with 4 nt bulge (9-12)<br>
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<td width=290px>
<td width=290px>
<div class="title">
<div class="title">
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Seed sequence (1-8) &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <span class="help"><a href="#">?</a></span>
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Seed sequence (1-8) &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <span class="help"><a href="https://2010.igem.org/Team:Heidelberg/Modeling/trainingset#Seed_Types" target="_blank" title="Seed sequence help">?</a></span>
</div>
</div>
<div class="option"><SELECT name="seed" onchange="chMd1()" disabled="disabled">
<div class="option"><SELECT name="seed" onchange="chMd1()" disabled="disabled">
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<td>
<td>
<div class="title">
<div class="title">
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Supplementary region &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <span class="help"><a href="#">?</a></span></div>
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Supplementary region &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <span class="help"><a href="https://2010.igem.org/Team:Heidelberg/Modeling/trainingset#Supplementary_Region" title="Supplementary region help" target="_blank">?</a></span></div>
<div class="option"><SELECT name="comp" onchange="chMd2()" disabled="disabled">
<div class="option"><SELECT name="comp" onchange="chMd2()" disabled="disabled">
<OPTION value="0">
<OPTION value="0">
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<td>
<div class="title">
<div class="title">
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Modify AU content &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <span class="help"><a href="#">?</a></span></div>
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Modify AU content &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; <span class="help"><a href="https://2010.igem.org/Team:Heidelberg/Modeling/trainingset#AU_Content" target="_blank" title="AU help">?</a></span></div>
<table style="line-height:2; font-size:12px;">
<table style="line-height:2; font-size:12px;">
<tr>
<tr>
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</td>
</td>
<td>
<td>
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<div class="title">Sticky ends for integration into plasmid &nbsp; <span class="help"><a href="#">?</a></span></div></div>
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<div class="title">Sticky ends for integration into plasmid &nbsp; <span class="help"><a href="https://2010.igem.org/Team:Heidelberg/Modeling/trainingset#Sticky_Ends target="_blank" title="ends help"">?</a></span></div></div>
<div class="option"><SELECT id="stickyends" name="stickyends" onchange="chMd3()">
<div class="option"><SELECT id="stickyends" name="stickyends" onchange="chMd3()">
<OPTION SELECTED value="none">None
<OPTION SELECTED value="none">None
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<br>
<br>
<center>
<center>
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<input value="      Get your Binding Site!      " type="button" onclick="SBS(seqIn)">
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<input value="      Generate your Binding Site!      " type="button" onclick="SBS(seqIn)">
</center>
</center>
</div>
</div>

Latest revision as of 13:40, 27 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
Modify AU content                ?
A in position -1
A in position 1
A in position 9
 A in position 0
A in position 8
A in position 10
Sticky ends for integration into plasmid   ?
Customized:
5'  
3'  



Name of primer 1


Sequence of primer 1


Name of primer 2


Sequence of primer 2

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