User:ChristopherW

From 2013.igem.org

(Difference between revisions)

Latest revision as of 21:26, 14 September 2013

AutoAnnotator by Team TU-Munich 2013

Enter a BioBrick number below, either starting with "BBa_" or just the alphanumeric code!
Alternatively (e.g. for new BioBricks, which aren't in the Registry yet) you can enter the nucleotide sequence directly.

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 <p id="Command">Enter a BioBrick number below, either starting with "BBa_" or just the alphanumeric code! <br>
 Alternatively (e.g. for new BioBricks, which aren't in the Registry yet) you can enter the nucleotide sequence directly.
 </p>
-<input type="text" id="EnteredBioBrick"> Enter BioBrick number!
+<form>
+<input type="text" id="EnteredBioBrick"> Enter BioBrick number or DNA sequence!
 <br>
-<input type="button" onclick="get_sequence()" value="Click here to create table">
+<input type="button" id="CreateTableButton" onclick="get_sequence()" value="Click here to create table">
+</form>
 <p id="htmlExplanation"></p>
 <p id="htmlTable"></p>
-<br>
 <p id="wikiExplanation"></p>
-<p id="wikiTable"></p>
+<textarea readonly id="wikiTable" style="width:100%; display: none;" rows="4"></textarea>
+<script>
+//for enter to trigger program when cursor in the textfield
+$('#EnteredBioBrick').keyup(function(event) {
+	if (event.which == 13){
+		$('#EnteredBioBrick').blur(); //to loose focus
+		$('#CreateTableButton').click();
+	}
+})
+$('#EnteredBioBrick').keydown(function(event) {
+if (event.which == 13) {
+  event.preventDefault();
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-<html><table border="1" cellspacing="0" width="100%" !important><tr><!-- Time stamp in ms since 1/1/1970 1375462874671 --><td width="100%" colspan="2"><strong>Parameters for BioBrick <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K801090">BBa_K801090</a> automatically created by the <a href="https://2013.igem.org/Team:TU-Munich/Results/AutoAnnotator">BioBrick-AutoAnnotator</a> version 1.0</strong></td></tr><tr><td width="100%" colspan="2"><strong>Nucleotide sequence</strong> in <strong>RFC 25</strong>, so ATGGCCGGC and ACCGGT were added (in italics) to the 5' and 3' ends: (underlined part encodes the protein)<br><span style="font-family:'Courier New', Arial;">&nbsp;<u><i>ATGGCCGGC</i>TACACAATG&nbsp;...&nbsp;ATGCTCGCT<i>ACCGGT</i></u></span><br>&nbsp;<strong>ORF</strong> from -8 to 2160 (excluding stop-codon)</td></tr><tr><td width="100%" colspan="2"><strong>Amino acid sequence:</strong><br><span style="font-family:'Courier New', Arial;">&nbsp;&nbsp;1 MAGYTMAPSLDSISHSFANGVASAKQAVNGASTNLAVAGSHLPTTQVTQVDIVEKMLAAPTDSTLELDGYSLNLGDVVSAARKGRPVRVKDSDEIRSKID<br>101 KSVEFLRSQLSMSVYGVTTGFGGSADTRTEDAISLQKALLEHQLCGVLPSSFDSFRLGRGLENSLPLEVVRGAMTIRVNSLTRGHSAVRLVVLEALTNFL<br>201 NHGITPIVPLRGTISASGDLSPLSYIAAAISGHPDSKVHVVHEGKEKILYAREAMALFNLEPVVLGPKEGLGLVNGTAVSASMATLALHDAHMLSLLSQS<br>301 LTAMTVEAMVGHAGSFHPFLHDVTRPHPTQIEVAGNIRKLLEGSRFAVHHEEEVKVKDDEGILRQDRYPLRTSPQWLGPLVSDLIHAHAVLTIEAGQSTT<br>401 DNPLIDVENKTSHHGGNFQAAAVANTMEKTRLGLAQIGKLNFTQLTEMLNAGMNRGLPSCLAAEDPSLSYHCKGLDIAAAAYTSELGHLANPVTTHVQPA<br>501 EMANQAVNSLALISARRTTESNDVLSLLLATHLYCVLQAIDLRAIEFEFKKQFGPAIVSLIDQHFGSAMTGSNLRDELVEKVNKTLAKRLEQTNSYDLVP<br>601 RWHDAFSFAAGTVVEVLSSTSLSLAAVNAWKVAAAESAISLTRQVRETFWSAASTSSPALSYLSPRTQILYAFVREELGVKARRGDVFLGKQEVTIGSNV<br>701 SKIYEAIKSGRINNVLLKMLATG*</span></td></tr><tr><td width="100%" colspan="2"><strong>Amino acid composition:</strong><table border="0" cellspacing="0" width="100%"><tr><td width="20%"><table border="1" cellspacing="0" width="100%"><tr><td width="50%">A (Ala)</td><td width="50%">80 (11.1%)</td></tr><tr><td width="50%">R (Arg)</td><td width="50%">35 (4.8%)</td></tr><tr><td width="50%">N (Asn)</td><td width="50%">29 (4.0%)</td></tr><tr><td width="50%">D (Asp)</td><td width="50%">30 (4.1%)</td></tr></table></td><td width="20%"><table border="1" cellspacing="0" width="100%"><tr><td width="50%">C (Cys)</td><td width="50%">4 (0.6%)</td></tr><tr><td width="50%">Q (Gln)</td><td width="50%">23 (3.2%)</td></tr><tr><td width="50%">E (Glu)</td><td width="50%">41 (5.7%)</td></tr><tr><td width="50%">G (Gly)</td><td width="50%">50 (6.9%)</td></tr></table></td><td width="20%"><table border="1" cellspacing="0" width="100%"><tr><td width="50%">H (His)</td><td width="50%">26 (3.6%)</td></tr><tr><td width="50%">I (Ile)</td><td width="50%">31 (4.3%)</td></tr><tr><td width="50%">L (Leu)</td><td width="50%">87 (12.0%)</td></tr><tr><td width="50%">K (Lys)</td><td width="50%">29 (4.0%)</td></tr></table></td><td width="20%"><table border="1" cellspacing="0" width="100%"><tr><td width="50%">M (Met)</td><td width="50%">16 (2.2%)</td></tr><tr><td width="50%">F (Phe)</td><td width="50%">21 (2.9%)</td></tr><tr><td width="50%">P (Pro)</td><td width="50%">27 (3.7%)</td></tr><tr><td width="50%">S (Ser)</td><td width="50%">69 (9.5%)</td></tr></table></td><td width="20%"><table border="1" cellspacing="0" width="100%"><tr><td width="50%">T (Thr)</td><td width="50%">48 (6.6%)</td></tr><tr><td width="50%">W (Trp)</td><td width="50%">4 (0.6%)</td></tr><tr><td width="50%">Y (Tyr)</td><td width="50%">13 (1.8%)</td></tr><tr><td width="50%">V (Val)</td><td width="50%">60 (8.3%)</td></tr></table></td></tr></table></td></tr><tr><td width="40%"><strong>Amino acid counting:</strong>&nbsp;&nbsp;<table border="0" cellspacing="0" width="100%"><tr><td width=" 5%"></td><td width="55%">Total number:</td><td width="40%">723</td></tr><tr><td width=" 5%"></td><td width="55%">Positively charged (Arg+Lys):</td><td width="40%">64 (8.9%)</td></tr><tr><td width=" 5%"></td><td width="55%">Negatively charged (Asp+Glu):</td><td width="40%">71 (9.8%)</td></tr></table></td><td width="60%"><strong>Biochemical parameters:</strong><table border="0" cellspacing="0" width="100%"><tr><td width=" 5%"></td><td width="55%">Molecular mass [Da]:</td><td width="40%">77561.4</td></tr><tr><td width=" 5%"></td><td width="55%">Theoretical pI:</td><td width="40%">6.44</td></tr><tr><td width=" 5%"></td><td width="55%">Extinction coefficient at 280 nm [M<sup>-1</sup> cm<sup>-1</sup>]:</td><td width="40%">41370 / 41620 (all Cys red/ox)</td></tr></table></td></tr><tr><td colspan="2" width="100%"><strong>Organism specific parameters</strong><table border="1" cellspacing="0" width="100%"><tr><td width="40%"><table border="0" cellspacing="0" width="100%"><tr><td><strong>Organism</strong></td></tr><tr><td><i>E. coli</i></td></tr><tr><td><i>B. subtilis</i></td></tr><tr><td><i>S. cervisiae</i></td></tr><tr><td><i>A. thaliana</i></td></tr><tr><td>Mammals</td></tr></table></td><td width="30%"><table border="0" cellspacing="0" width="100%"><tr><td><strong>Estimated half-life [h]</strong></td></tr><tr><td>>10</td></tr><tr><td></td></tr><tr><td>>20</td></tr><tr><td></td></tr><tr><td>30</td></tr></table></td><td width="30%"><table border="0" cellspacing="0" width="100%"><tr><td><strong>Codon usage (CAI)</strong></td></tr><tr><td>good (0.63)</td></tr><tr><td><i>B. subtilis</i></td></tr><tr><td>acceptable (0.46)</td></tr><tr><td><i>A. thaliana</i></td></tr><tr><td>good (0.69)</td></tr></table></td></tr></table></td></tr><tr><td colspan="2" width="100%"><strong>Organism specific parameters</strong><table border="1" cellspacing="0" width="100%"><tr><td><strong>Organism:</strong></td><td><i>E. coli</i></td><td><i>B. subtilis</i></td><td><i>S. cervisiae</i></td><td><i>A. thaliana</i></td><td>Mammals</td></tr><tr><td><strong>Estimated half-life [h]</strong></td><td>>10</td><td></td><td>>20</td><td></td><td>30</td></tr><tr><td><strong>Codon usage (CAI)</strong></td><td>good (0.63)</td><td><i>B. subtilis</i></td><td>acceptable (0.46)</td><td><i>A. thaliana</i></td><td>good (0.69)</td></tr></table></td></tr><tr><td colspan="2" width="100%"><strong>Sequence features:</strong></td></tr><tr><td colspan="2" width="100%"> The BioBrick-AutoAnnotator was created by <a href="https://2013.igem.org/Team:TU-Munich">TU-Munich 2013</a> iGEM team. For more information please see the <a href="https://2013.igem.org/Team:TU-Munich/Results/Software">documentation</a>.<br>If you have any questions, comments or suggestions, please email us at <a href="mailto:igem@wzw.tum.de?Subject=AutoAnnotator" target="_top">igem@wzw.tum.de</a>.</td></tr></table><br></html>