Team:TUDelft/RiboKeyLock Generator

From 2009.igem.org

(Difference between revisions)
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<form name="RBSinput" action="" method="get">
<form name="RBSinput" action="" method="get">
Enter RBS DNA sequence:<br>
Enter RBS DNA sequence:<br>
-
<input type="text" name="RBSdna" size=40 value=""> example: TCACACAGGAAACC<br><br>
+
<input type="text" name="RBSdna" size=40 value=""> example: TCACACAGGAAACC<br>
 +
or select a BioBrick RBS:<br>
-
RBS RNA sequence:<br>
+
<select name="BioBrickSelect" onChange="document.RBSinput.RBSdna.value=document.RBSinput.BioBrickSelect.options[document.RBSinput.BioBrickSelect.selectedIndex].value">
-
<input type="text" name="RBS" size=40 value="" readonly="readonly"> example: UCACACAGGAAACC<br><br>
+
<option value=TTCACACAGGAAACC>BBa_B0029</option>
 +
<option value=AUUAAAGAGGAGAAA>BBa_B0030</option>
 +
<option value=UCACACAGGAAACC>BBa_B0031</option>
 +
<option value=UCACACAGGAAAG>BBa_B0032</option>
 +
<option value=UCACACAGGAC>BBa_B0033</option>
 +
<option value=AAAGAGGAGAAA>BBa_B0034</option>
 +
<option value=ATTAAAGAGGAGAA>BBa_B0035 </option>
 +
<option value=AAAGAGGGGAAA>BBa_B0064</option>
 +
<option value=TCACACCACCC>BBa_B0074</option>
 +
<option value=UUUCUCCUCUUUAAU>BBa_J44001</option>
 +
<option value=AAAGAGGGGACA>BBa_J61100</option>
 +
<option value=AAAGACAGGACC>BBa_J61101</option>
 +
<option value=AAAGAUCCGAUG>BBa_J61102</option>
 +
<option value=AAAGAUUAGACA>BBa_J61103</option>
 +
<option value=AAAGAAGGGACA>BBa_J61104</option>
 +
<option value=AAAGACAUGACG>BBa_J61105</option>
 +
<option value=AAAGAUAGGAGA>BBa_J61106</option>
 +
<option value=AAAGAAGAGACU>BBa_J61107</option>
 +
<option value=AAAGACGAGAUA>BBa_J61108</option>
 +
<option value=AAAGACUGGAGA>BBa_J61109</option>
 +
<option value=AAAGAGGCGAAU>BBa_J61110</option>
 +
<option value=AAAGAGGCGAUA>BBa_J61111</option>
 +
<option value=AAAGAGGUGACA>BBa_J61112</option>
 +
<option value=AAAGAGUGGAAA>BBa_J61113</option>
 +
<option value=AAAGAUGAGAAG>BBa_J61114</option>
 +
<option value=AAAGAAGGGAUA>BBa_J61115</option>
 +
<option value=AAAGACAUGAGG>BBa_J61116</option>
 +
<option value=AAAGACAUGAGU>BBa_J61117</option>
 +
<option value=AAAGAGACGAAU>BBa_J61118</option>
 +
<option value=AAAGAUUUGAUA>BBa_J61119</option>
 +
<option value=AAAGACGCGAGA>BBa_J61120</option>
 +
<option value=AAAGAGACGAGU>BBa_J61121</option>
 +
<option value=AAAGAGAGGAGC>BBa_J61122</option>
 +
<option value=AAAGAGAUGACU>BBa_J61123</option>
 +
<option value=AAAGAGCCGACA>BBa_J61124</option>
 +
<option value=AAAGAGCCGAGU>BBa_J61125</option>
 +
<option value=AAAGAGGUGACU>BBa_J61126</option>
 +
<option value=AAAGAGUGGAAC>BBa_J61127</option>
 +
<option value=AAAGAUAGGACU>BBa_J61128</option>
 +
<option value=AAAGAUUGGACG>BBa_J61129</option>
 +
<option value=AAAGAAACGACA>BBa_J61130</option>
 +
<option value=AAAGAACCGAAU>BBa_J61131</option>
 +
<option value=AAAGACAGGAUU>BBa_J61132</option>
 +
<option value=AAAGACCCGAGA>BBa_J61133</option>
 +
<option value=AAAGACCGGAAA>BBa_J61134</option>
 +
<option value=AAAGACCGGAGA>BBa_J61135</option>
 +
<option value=AAAGAGCUGAGC>BBa_J61136</option>
 +
<option value=AAAGAGUAGAUC>BBa_J61137</option>
 +
<option value=AAAGAUAUGAAU>BBa_J61138</option>
 +
<option value=AAAGAUUAGAGU>BBa_J61139</option>
 +
<option value=CCCGCCGCCACCAUGGAG>BBa_J63003</option>
 +
<option value=AUUAAAGAGGAGAAAUA>BBa_K082000</option>
 +
<option value=UCACACAGGAAAGUA>BBa_K082001</option>
 +
<option value=AAAGAGGAGAAAUA>BBa_K082002</option>
 +
<option value=CCCGCCGCCACCAUGGAG>BBa_K165002</option>
 +
</select>
 +
 
 +
<br><br>
<!--<input type="submit" value="Generate Key and Lock" />-->
<!--<input type="submit" value="Generate Key and Lock" />-->
<a href="#" onclick="calckeylock()" title=""><img src="https://static.igem.org/mediawiki/2009/7/7a/TUD-ribo-keylock-button.png" border="0"></a>
<a href="#" onclick="calckeylock()" title=""><img src="https://static.igem.org/mediawiki/2009/7/7a/TUD-ribo-keylock-button.png" border="0"></a>
<br><br>
<br><br>
 +
 +
RBS RNA sequence:<br>
 +
<input type="text" name="RBS" size=40 value="" readonly="readonly"> example: UCACACAGGAAACC<br><br>
 +
Key RBS reverse complement RNA sequence with two mismatches:<br>
Key RBS reverse complement RNA sequence with two mismatches:<br>
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Lock RBS reverse complement RNA sequence with one mismatch:<br>
Lock RBS reverse complement RNA sequence with one mismatch:<br>
<input type="text" name="LOCKrevcommisRBS" size=40 value="" readonly="readonly"><br><br>
<input type="text" name="LOCKrevcommisRBS" size=40 value="" readonly="readonly"><br><br>
 +
 +
<hr><br>
 +
Key RNA sequence:<br>
 +
<textarea rows="5" cols="80" name="genkey" wrap="soft">
 +
</textarea>
 +
<p>
 +
Lock RNA sequence:<br>
 +
<textarea rows="5" cols="80" name="genlock" wrap="soft">
 +
</textarea>
 +
<p>
 +
<a href=http://mfold.bioinfo.rpi.edu/cgi-bin/rna-form1.cgi>Jump to mfold</a>
 +
<br><br>
 +
<hr><br>
 +
Key DNA sequence:<br>
 +
<textarea rows="5" cols="80" name="genkeyDNA" wrap="soft">
 +
</textarea>
 +
<p>
 +
Lock DNA sequence:<br>
 +
<textarea rows="5" cols="80" name="genlockDNA" wrap="soft">
 +
</textarea>
 +
<br><br>
<hr><br>
<hr><br>
-
<b>Key stuff:</b><p>
+
<b>Key variables:</b><p>
Upstream<br>
Upstream<br>
<input type="text" name="KEYupsteam" value="ACCCAAAGUCC" readonly="readonly" size=40><p>
<input type="text" name="KEYupsteam" value="ACCCAAAGUCC" readonly="readonly" size=40><p>
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<hr><br>
<hr><br>
-
<b>Lock stuff:</b><p>
+
<b>Lock variables:</b><p>
Upstream<br>
Upstream<br>
<input type="text" name="LOCKupsteam" value="UUUGGGUAGAUCAC" readonly="readonly" size=40><p>
<input type="text" name="LOCKupsteam" value="UUUGGGUAGAUCAC" readonly="readonly" size=40><p>
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<input type="text" name="LOCKposmis" value="3" readonly="readonly" size=40>
<input type="text" name="LOCKposmis" value="3" readonly="readonly" size=40>
<br><br>
<br><br>
-
<hr><br>
 
-
Key RNA sequence:<br>
 
-
<textarea rows="5" cols="80" name="genkey" wrap="soft">
 
-
</textarea>
 
-
<p>
 
-
Lock RNA sequence:<br>
 
-
<textarea rows="5" cols="80" name="genlock" wrap="soft">
 
-
</textarea>
 
-
<p>
 
-
<a href=http://mfold.bioinfo.rpi.edu/cgi-bin/rna-form1.cgi>Jump to mfold</a>
 
-
<br><br>
 
-
<hr><br>
 
-
Key DNA sequence:<br>
 
-
<textarea rows="5" cols="80" name="genkeyDNA" wrap="soft">
 
-
</textarea>
 
-
<p>
 
-
Lock DNA sequence:<br>
 
-
<textarea rows="5" cols="80" name="genlockDNA" wrap="soft">
 
-
</textarea>
 
-
<p>
 
-
 
</form>
</form>

Revision as of 08:19, 8 August 2009

Ribo Key & Lock Generator

Enter RBS DNA sequence:
example: TCACACAGGAAACC
or select a BioBrick RBS:




RBS RNA sequence:
example: UCACACAGGAAACC

Key RBS reverse complement RNA sequence with two mismatches:


Lock RBS reverse complement RNA sequence with one mismatch:



Key RNA sequence:

Lock RNA sequence:

Jump to mfold


Key DNA sequence:

Lock DNA sequence:



Key variables:

Upstream

Downstream

Further Downstream (optional part)


Position 1 (bp) of mismatch in the reverse complment of RBS


Position 2 (bp) of mismatch in the reverse complment of RBS



Lock variables:

Upstream

Scar + Start Codon

Mismatch sequence

Scar complement

Position (bp) of mismatch in the reverse complment of RBS


Retrieved from "http://2009.igem.org/Team:TUDelft/RiboKeyLock_Generator"