Team:SDU-Denmark/primers

From 2010.igem.org

(Difference between revisions)
 
(11 intermediate revisions not shown)
Line 2: Line 2:
{{:Team:SDU-Denmark/navi2}}
{{:Team:SDU-Denmark/navi2}}
<div id="subnavi">
<div id="subnavi">
-
<div id="leftcolumn">
+
<div id="parts">
 +
 +
= Our Parts =
 +
<groupparts>iGEM010 SDU-Denmark</groupparts>
 +
 +
<br>
== '''Primers''' ==
== '''Primers''' ==
 +
<p style="text-align: justify;">
<br>
<br>
-
On this page we list all the primers we designed and used during the summer.<br><br>
+
On this page we list all the primers we designed and used during the summer. All primers were kindly provided by [http://www.dna-technology.dk/ DNA Technology]. <br><br>
-
<table style="text-align: left;" border="1"
+
 
-
cellpadding="2" cellspacing="2">
+
In the following, coding sequences are colored <span
 +
style="color: rgb(88, 115, 248);">blue</span>, restriction sites are colored <span
 +
style="color: rgb(80, 204, 56);">green</span> and nucleotides that are both are shown in <span
 +
style="color: rgb(255, 153, 0);">orange</span>.<br>
 +
The mutation sites in the FlhDC mutation primers are shown in <span
 +
style="color: rgb(205, 51, 204);">purple</span>.
 +
<br><br>
 +
 
 +
<html>
 +
<head>
 +
</head>
 +
<body>
 +
<table style="text-align: left; width: 630px; height: 508px;"
 +
border="1" cellpadding="2" cellspacing="2">
 +
  <tbody>
     <tr>
     <tr>
-
       <td>Primer name</td>
+
       <td
-
       <td>coding sequence</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">Primer
-
      <td>Tm (celcius)</td>
+
name</td>
-
       <td>sequence with prefix or suffix</td>
+
       <td
-
      <td>Tm (celcius)</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 638px;">Sequence</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">Tm
 +
(C)</td>
     </tr>
     </tr>
     <tr>
     <tr>
-
       <td>FlhD/C primer fw</td>
+
       <td
-
       <td>5'-ATGCATACCTCCGAGTTGCTGAAA-3'</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">FlhDC
-
      <td>55.7</td>
+
fw</td>
-
      <td>5'-GTTTCTTCGAATTCGCGGCCGCTTCTAGATGCATACCTCCGAGTTGCTGAAA-3'</td>
+
       <td
-
       <td>88.3</td>
+
style="font-family: Courier New; height: 44px; width: 638px;">5'-GTTTCTTC<span
 +
style="color: rgb(80, 204, 56);">GAATTC</span>GCGGCCGCT<span
 +
style="color: rgb(80, 204, 56);">TCTAG</span><span
 +
style="color: rgb(88, 115, 248);"><span
 +
style="color: rgb(255, 153, 0);">A</span>TGCATACCTCCGAGTTGCTGAAA</span>-3'</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">88.3</td>
     </tr>
     </tr>
     <tr>
     <tr>
-
       <td>FlhD/C primer rv</td>
+
       <td
-
       <td>5'-AAACAGCCTGTACTCTCTGTTC-3'</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">FlhDC
-
      <td>53</td>
+
rv</td>
-
      <td>5'-GTTTCTTCCTGCAGCGGCCGCTACTATTAAACAGCCTGTACTCTCTGTTC-3'</td>
+
       <td
-
       <td>88.3</td>
+
style="font-family: Courier New; height: 44px; width: 638px;">5'-GTTTCTTC<span
 +
style="color: rgb(80, 204, 56);">CTGCAG</span>CGGCCGCTACTATT<span
 +
style="color: rgb(88, 115, 248);">AAACAGCCTGTACTCTCTGTTC</span>-3'</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">88.3</td>
     </tr>
     </tr>
     <tr>
     <tr>
-
       <td>FlhD/C mutation primer fw^</td>
+
       <td
-
       <td>5'-TTGGCAGCTTTGCCCGCAGCTTATG-3'</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">FlhDC
-
      <td>61</td>
+
mutation fw*</td>
-
      <td></td>
+
       <td
-
       <td></td>
+
style="font-family: Courier New; height: 44px; width: 638px;">5'-<span
 +
style="color: rgb(88, 115, 248);">TTGGCAGCTTTGCC<span
 +
style="color: rgb(204, 51, 204);">C</span>GCAGCTTATG</span>-3'</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">61.0</td>
     </tr>
     </tr>
     <tr>
     <tr>
-
       <td>FlhD/C mutation primer rv^</td>
+
       <td
-
       <td>5'-CATAAGCTGCGGGCAAAGCTGCCAA-3'</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">FlhDC
-
      <td>61</td>
+
mutation rv*</td>
-
      <td></td>
+
       <td
-
       <td></td>
+
style="font-family: Courier New; height: 44px; width: 638px;">5'-<span
 +
style="color: rgb(88, 115, 248);">CATAAGCTGC<span
 +
style="color: rgb(204, 51, 204);">G</span>GGCAAAGCTGCCAA</span>-3'</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">61.0</td>
     </tr>
     </tr>
     <tr>
     <tr>
-
       <td>Photosensor primer fw</td>
+
       <td
-
       <td>5'-ATGGTGGGACTTACGACCTC-3'</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">Photosensor
-
      <td>53.8</td>
+
fw</td>
-
      <td>5'-GTTTCTTCGAATTCGCGGCCGCTTCTAGATGGTGGGACTTACGACCTC-3'</td>
+
       <td
-
       <td>73.1</td>
+
style="font-family: Courier New; height: 44px; width: 638px;">5'-GTTTCTTC<span
 +
style="color: rgb(80, 204, 56);">GAATTC</span>GCGGCCGCT<span
 +
style="color: rgb(80, 204, 56);">TCTAG</span><span
 +
style="color: rgb(88, 115, 248);"><span
 +
style="color: rgb(255, 102, 0);">A</span>TGGTGGGACTTACGACCTC</span>-3'</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">73.1</td>
     </tr>
     </tr>
     <tr>
     <tr>
-
       <td>Photosensor primer rv</td>
+
       <td
-
       <td>5'-TCAGAAGGTTTCCCAGTTCGCATC-3'</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">Photosensor
-
      <td>57.4</td>
+
rv</td>
-
      <td>5'-GTTTCTTCCTGCAGCGGCCGCTACTAGTATCAGAAGGTTTCCCAGTTCGCATC-3'</td>
+
       <td
-
       <td>73.9</td>
+
style="font-family: Courier New; height: 44px; width: 638px;">5'-GTTTCTTC<span
 +
style="color: rgb(80, 204, 56);">CTGCAG</span>CGGCCGCT<span
 +
style="color: rgb(80, 204, 56);">ACTAGT</span>A<span
 +
style="color: rgb(88, 115, 248);">TCAGAAGGTTTCCCAGTTCGCATC</span>-3'</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">73.9</td>
     </tr>
     </tr>
     <tr>
     <tr>
-
       <td>beta-caroten monooxygenase primer1 fw</td>
+
       <td
-
       <td>5'-ATGGCAGCCGGTGTCTTCAAGAG-3'</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">NinaB
-
      <td>58.8</td>
+
fw</td>
-
      <td>5'-GAATTCGCGGCCGCTTCTAGATGGCAGCCGGTGTCTTCAAGAG-3'</td>
+
       <td
-
       <td>73.1</td>
+
style="font-family: Courier New; height: 44px; width: 638px;">5'-<span
 +
style="color: rgb(80, 204, 56);"><span
 +
style="color: black;">GTTTCTTC</span>GAATTC</span>GCGGCCGCT<span
 +
style="color: rgb(80, 204, 56);">TCTAG</span><span
 +
style="color: rgb(88, 115, 248);"><span
 +
style="color: rgb(255, 102, 0);">A</span>TGGCAGCCGGTGTCTTCAAGAG</span>-3'</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">73.1</td>
     </tr>
     </tr>
     <tr>
     <tr>
-
       <td>beta-caroten monooxygenase primer1 rv</td>
+
       <td
-
       <td>5'-CTAAATGGCATTGGGTGCAAACCATC-3'</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">NinaB
-
      <td>58</td>
+
rv</td>
-
      <td>5'-CTGCAGCGGCCGCTACTAGTACTAAATGGCATTGGGTGCAAACCATC-3'</td>
+
       <td
-
       <td>72.4</td>
+
style="font-family: Courier New; height: 44px; width: 638px;">5'-<span
 +
style="color: rgb(80, 204, 56);"><span
 +
style="color: black;">GTGTCTTC</span>CTGCAG</span>CGGCCGCT<span
 +
style="color: rgb(80, 204, 56);">ACTAGT</span>A<span
 +
style="color: rgb(88, 115, 248);">CTAAATGGCATTGGGTGCAAACCATC</span>-3'</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">72.4</td>
     </tr>
     </tr>
     <tr>
     <tr>
-
       <td>beta-caroten monooxygenase primer2 fw^^</td>
+
       <td
-
       <td>5'-ATGGCAGCCGGTGTCTTCAAGAG-3'</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">NinaB
-
      <td>58.8</td>
+
2 fw**</td>
-
      <td>5'-CCGCTTCTAGATGGCAGCCGGTGTCTTCAAGAG-3'</td>
+
       <td
-
       <td>68.1</td>
+
style="font-family: Courier New; height: 44px; width: 638px;">5'-CCGCT<span
 +
style="color: rgb(80, 204, 56);">TCTAG</span><span
 +
style="color: rgb(88, 115, 248);"><span
 +
style="color: rgb(255, 102, 0);">A</span>TGGCAGCCGGTGTCTTCAAGAG</span>-3'</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">68.1</td>
     </tr>
     </tr>
     <tr>
     <tr>
-
       <td>beta-caroten monooxygenase primer2 rv^^</td>
+
       <td
-
       <td>5'-CTAAATGGCATTGGGTGCAAACCATC-3'</td>
+
style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">NinaB
-
      <td>58</td>
+
2 rv**</td>
-
      <td>5'-CGCTACTAGTACTAAATGGCATTGGGTGCAAACCATC-3'</td>
+
       <td
-
       <td>65.6</td>
+
style="font-family: Courier New; height: 44px; width: 638px;">5'-CGCT<span
 +
style="color: rgb(80, 204, 56);">ACTAGT</span>A<span
 +
style="color: rgb(88, 115, 248);">CTAAATGGCATTGGGTGCAAACCATC</span>-3'</td>
 +
       <td
 +
style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">65.6</td>
     </tr>
     </tr>
-
</table><br>
+
  </tbody>
-
^ Mutation primers to introduce a silent mutation at position 822 in the operon<br>
+
</table>
-
^^ Due to the formation of hairpin structures of beta-caroten monooxygenase primer 1, primers with prefix and suffix only containing the restrictionsites of xbaI and SpeI respectively were designed.<br><br>
+
-
 
+
-
= Thanks to our sponsors! =
+
-
<br>
+
-
http://igem.sdu.dk/wp-content/uploads/sponsor-sdu.png http://igem.sdu.dk/wp-content/uploads/sponsor-fermentas.png http://igem.sdu.dk/wp-content/uploads/sponsor-dnatech.png  [[Image:Team-sdu-2010-ida-logo.png]]<br>
+
<br>
<br>
 +
</body>
 +
</html>
 +
 +
 +
(*) Mutation primers were designed to introduce a silent mutation at position 822 in the operon to eliminate an illegal PstI site.<br>
 +
(**) Due to the formation of hairpin structures of primers ninaB fw and ninaB rv, new primers were designed containing only the innermost restriction sites (XbaI and SpeI).<br><br>
 +
 +
</p>
 +
</div>
</div>
-
<div id="rightcolumn">
 
-
Insert clever content here.
 
</div>
</div>

Latest revision as of 21:47, 27 October 2010

Retrieved from "http://2010.igem.org/Team:SDU-Denmark/primers"