Team:Imperial College London/Software Tool

From 2010.igem.org

(Difference between revisions)
Line 21: Line 21:
   det[5] = "The complement system is part of the innate immune response to an acute infection. Detecting C3 convertase could give medical professionals a rapid method of seeing if a patient is fighting an acute infection.";
   det[5] = "The complement system is part of the innate immune response to an acute infection. Detecting C3 convertase could give medical professionals a rapid method of seeing if a patient is fighting an acute infection.";
   var prefix = "GAATTCGCGGCCGCTTCTAG";
   var prefix = "GAATTCGCGGCCGCTTCTAG";
-
   var promoter = "AATTTTGTCAAAATAATTTTATTGACAACGTCTTATTAACGTTGATATAATTTAAATTTTATTTGACAAAAATGGG CTCGTGTTGTACAATAAATGT";
+
   var promoter = "AATTTTGTCAAAATAATTTTATTGACAACGTCTTATTAACGTTGATATAATTTAAATTTTATTTGACAAAAATGGGCTCGTGTTGTACAATAAATGT";
   var rbs = "TACTAGAGTCTTCAGAAAGGAGT";
   var rbs = "TACTAGAGTCTTCAGAAAGGAGT";
   var scar = "TACTAG";
   var scar = "TACTAG";
-
   var cwb = "ATGCGTTCTTATATAAAAGTCCTAACAATGTGTTTTCTGGGGCT CATACTTTTTGTGCCAACAGCTTTGGCCGATAACTCAGTGAAAAGAGTTGGGGGAAGCAATAGATACGGCACTGCTGTACAAATATCAAAGC AAATGTATTCAACAGCAAGTACAGCTGTAATTGTTGGTGGGAGTTCCTATGCAGATGCTATTTCAGCAGCACCTCTTGCTTACCAGAAGAATG CGCCATTGCTTTACACTAATTCTGATAAGCTTTCATATGAAACGAAAACAAGATTGAAAGAGATGCAGACTAAAAATGTAATTATTGTAGGCG GAACACCTGCTGTTTCTTCTAACACTGCTAACCAGATTAAAAGCTTGGGGATAAGTATTAAACGAATTGCAGGAAGCAACCGTTATGATACGG CTGCACGGGTGGCAAAAGCGATGGGTGCGACTTCAAAAGCTGTTATTTTGAACGGCTTCTTATATGCAGACGCTCCGGCCGTCATCCCTTAT GCAGCGAAAAACGGGTATCCAATTCTTTTTACAAATAAAACATCTATAAATAGTGCGACTACGTCTGTGATAAAAGATAAGGGAATTTCGAGTA CCGTTGTTGTAGGAGGCACTGGAAGTATCAGCAATACGGTATACAACAAGTTACCTTCTCCTACAAGAATTAGCGGTTCAAACAGATATGAGC TTGCTGCAAATATCGTACAAAAACTTAATTTATCAACAAGCACCGTATATGTAAGCAATGGATTCAGCTACCCTGACTCTATTGCAGGAGCTAC ACTGGCAGCTAAGAAGAAGCAATCTCTTATTCTTACAAATGGTGAAAATTTATCTACAGGAGCCCGTAAAATTATTGGAAGTAAAAACATGTCA AACTTTATGATTATCGGAAACACTCCTGCCGTAAGCACAAAGGTTGCTAATCAGCTAAAGAATCCAGTTGTA";
+
   var cwb = "ATGCGTTCTTATATAAAAGTCCTAACAATGTGTTTTCTGGGGCTCATACTTTTTGTGCCAACAGCTTTGGCCGATAACTCAGTGAAAAGAGTTGGGGGAAGCAATAGATACGGCACTGCTGTACAAATATCAAAGCAAATGTATTCAACAGCAAGTACAGCTGTAATTGTTGGTGGGAGTTCCTATGCAGATGCTATTTCAGCAGCACCTCTTGCTTACCAGAAGAATGCGCCATTGCTTTACACTAATTCTGATAAGCTTTCATATGAAACGAAAACAAGATTGAAAGAGATGCAGACTAAAAATGTAATTATTGTAGGCGGAACACCTGCTGTTTCTTCTAACACTGCTAACCAGATTAAAAGCTTGGGGATAAGTATTAAACGAATTGCAGGAAGCAACCGTTATGATACGGCTGCACGGGTGGCAAAAGCGATGGGTGCGACTTCAAAAGCTGTTATTTTGAACGGCTTCTTATATGCAGACGCTCCGGCCGTCATCCCTTATGCAGCGAAAAACGGGTATCCAATTCTTTTTACAAATAAAACATCTATAAATAGTGCGACTACGTCTGTGATAAAAGATAAGGGAATTTCGAGTACCGTTGTTGTAGGAGGCACTGGAAGTATCAGCAATACGGTATACAACAAGTTACCTTCTCCTACAAGAATTAGCGGTTCAAACAGATATGAGCTTGCTGCAAATATCGTACAAAAACTTAATTTATCAACAAGCACCGTATATGTAAGCAATGGATTCAGCTACCCTGACTCTATTGCAGGAGCTACACTGGCAGCTAAGAAGAAGCAATCTCTTATTCTTACAAATGGTGAAAATTTATCTACAGGAGCCCGTAAAATTATTGGAAGTAAAAACATGTCAAACTTTATGATTATCGGAAACACTCCTGCCGTAAGCACAAAGGTTGCTAATCAGCTAAAGAATCCAGTTGTA";
-
   var linker = "AGCAGGGGTAGCAGGGCTGG TGGCGGTGGCGGTGGC";
+
   var linker = "AGCAGGGGTAGCAGGGCTGGTGGCGGTGGCGGTGGC";
   var cleavage = new Array();
   var cleavage = new Array();
   cleavage[1] = "AGCTGGCCTCTT";
   cleavage[1] = "AGCTGGCCTCTT";
Line 98: Line 98:
<style type="text/css">
<style type="text/css">
  #sequenceout {
  #sequenceout {
-
   width:500px;}
+
   width:820px;
 +
  word-wrap: break-word;}
</style>
</style>
<div id="sequenceout"><span id="stem">Awaiting sequence generation... </span><span id="spre" style="color:#F6CF39"></span><span id="spro" style="color:#FC8E42"></span><span id="srbs" style="color:#D34649"></span><span id="ssca" style="color:#A851AA"></span><span id="scwb" style="color:#AB6197"></span><span id="slin" style="color:#6273A8"></span><span id="scle" style="color:#6A9ECD"></span><span id="saip" style="color:#68904E"></span><span id="ster" style="color:#9DB742"></span><span id="ssuf" style="color:#F6CF39"></span></div>
<div id="sequenceout"><span id="stem">Awaiting sequence generation... </span><span id="spre" style="color:#F6CF39"></span><span id="spro" style="color:#FC8E42"></span><span id="srbs" style="color:#D34649"></span><span id="ssca" style="color:#A851AA"></span><span id="scwb" style="color:#AB6197"></span><span id="slin" style="color:#6273A8"></span><span id="scle" style="color:#6A9ECD"></span><span id="saip" style="color:#68904E"></span><span id="ster" style="color:#9DB742"></span><span id="ssuf" style="color:#F6CF39"></span></div>

Revision as of 14:38, 20 October 2010

Software Tool
We realised early on that our detection module could be designed with a sensitivity to different proteases. By changing the cleavage site the system can accept a wide variety of inputs. This tool is designed to facilitate a quick custom sequence generation of the entire surface protein construct.
Select Protease Description

This was our primary target. Read our wiki to find out more!

Awaiting sequence generation...

Yellow - Biobrick Prefix/Suffix

Orange - Promoter

Red - Ribosome Binding Site

Violet - Scar

Purple - Cell Wall Binding Domain

Dark Blue - Adjustable Linker

Light Blue - Protease Cleavage Site

Dark Green - Autoinducing Peptide

Light Green - Terminator