Team:SDU-Denmark/primers

From 2010.igem.org

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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>
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>
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<table style="text-align: left;" border="1"
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cellpadding="2" cellspacing="2">
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<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.01//EN" "http://www.w3.org/TR/html4/strict.dtd">
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<html>
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<head>
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</head>
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<body>
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<table style="text-align: left; width: 630px; height: 508px;"
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border="1" cellpadding="2" cellspacing="2">
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  <tbody>
     <tr>
     <tr>
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       <td>Primer name</td>
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       <td
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       <td>coding sequence</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">Primer
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      <td>Tm (celcius)</td>
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name</td>
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       <td>sequence with prefix or suffix</td>
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       <td
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      <td>Tm (celcius)</td>
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style="width: 414px; font-family: Helvetica,Arial,sans-serif; height: 44px;">Sequence</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">Tm
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(C)</td>
     </tr>
     </tr>
     <tr>
     <tr>
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       <td>FlhD/C primer fw</td>
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       <td
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       <td>5'-ATGCATACCTCCGAGTTGCTGAAA-3'</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">FlhDC
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      <td>55.7</td>
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fw</td>
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      <td>5'-GTTTCTTCGAATTCGCGGCCGCTTCTAGATGCATACCTCCGAGTTGCTGAAA-3'</td>
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       <td
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       <td>88.3</td>
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style="width: 414px; font-family: Courier New; height: 44px;">5'-GTTTCTTC<span
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style="color: rgb(80, 204, 56);">GAATTC</span>GCGGCCGCT<span
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style="color: rgb(80, 204, 56);">TCTAG</span><span
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style="color: rgb(88, 115, 248);"><span
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style="color: rgb(255, 153, 0);">A</span>TGCATACCTCCGAGTTGCTGAAA</span>-3'</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">88.3</td>
     </tr>
     </tr>
     <tr>
     <tr>
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       <td>FlhD/C primer rv</td>
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       <td
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       <td>5'-AAACAGCCTGTACTCTCTGTTC-3'</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">FlhDC
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      <td>53</td>
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rv</td>
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      <td>5'-GTTTCTTCCTGCAGCGGCCGCTACTATTAAACAGCCTGTACTCTCTGTTC-3'</td>
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       <td
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       <td>88.3</td>
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style="width: 414px; font-family: Courier New; height: 44px;">5'-GTTTCTTC<span
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style="color: rgb(80, 204, 56);">CTGCAG</span>CGGCCGCTACTATT<span
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style="color: rgb(88, 115, 248);">AAACAGCCTGTACTCTCTGTTC</span>-3'</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">88.3</td>
     </tr>
     </tr>
     <tr>
     <tr>
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       <td>FlhD/C mutation primer fw^</td>
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       <td
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       <td>5'-TTGGCAGCTTTGCCCGCAGCTTATG-3'</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">FlhDC
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      <td>61</td>
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mutation fw*</td>
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      <td></td>
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       <td
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       <td></td>
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style="width: 414px; font-family: Courier New; height: 44px;">5'-<span
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style="color: rgb(88, 115, 248);">TTGGCAGCTTTGCCCGCAGCTTATG</span>-3'</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">61.0</td>
     </tr>
     </tr>
     <tr>
     <tr>
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       <td>FlhD/C mutation primer rv^</td>
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       <td
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       <td>5'-CATAAGCTGCGGGCAAAGCTGCCAA-3'</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">FlhDC
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      <td>61</td>
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mutation rv*</td>
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      <td></td>
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       <td
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       <td></td>
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style="width: 414px; font-family: Courier New; height: 44px;">5'-<span
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style="color: rgb(88, 115, 248);">CATAAGCTGCGGGCAAAGCTGCCAA</span>-3'</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">61.0</td>
     </tr>
     </tr>
     <tr>
     <tr>
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       <td>Photosensor primer fw</td>
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       <td
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       <td>5'-ATGGTGGGACTTACGACCTC-3'</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">Photosensor
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      <td>53.8</td>
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fw</td>
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      <td>5'-GTTTCTTCGAATTCGCGGCCGCTTCTAGATGGTGGGACTTACGACCTC-3'</td>
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       <td
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       <td>73.1</td>
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style="width: 414px; font-family: Courier New; height: 44px;">5'-GTTTCTTC<span
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style="color: rgb(80, 204, 56);">GAATTC</span>GCGGCCGCT<span
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style="color: rgb(80, 204, 56);">TCTAG</span><span
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style="color: rgb(88, 115, 248);"><span
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style="color: rgb(255, 102, 0);">A</span>TGGTGGGACTTACGACCTC</span>-3'</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">73.1</td>
     </tr>
     </tr>
     <tr>
     <tr>
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       <td>Photosensor primer rv</td>
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       <td
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       <td>5'-TCAGAAGGTTTCCCAGTTCGCATC-3'</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">Photosensor
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      <td>57.4</td>
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rv</td>
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      <td>5'-GTTTCTTCCTGCAGCGGCCGCTACTAGTATCAGAAGGTTTCCCAGTTCGCATC-3'</td>
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       <td
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       <td>73.9</td>
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style="width: 414px; font-family: Courier New; height: 44px;">5'-GTTTCTTC<span
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style="color: rgb(80, 204, 56);">CTGCAG</span>CGGCCGCT<span
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style="color: rgb(80, 204, 56);">ACTAGT</span>A<span
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style="color: rgb(88, 115, 248);">TCAGAAGGTTTCCCAGTTCGCATC</span>-3'</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">73.9</td>
     </tr>
     </tr>
     <tr>
     <tr>
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       <td>beta-caroten monooxygenase primer1 fw</td>
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       <td
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       <td>5'-ATGGCAGCCGGTGTCTTCAAGAG-3'</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">NinaB
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      <td>58.8</td>
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fw</td>
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      <td>5'-GAATTCGCGGCCGCTTCTAGATGGCAGCCGGTGTCTTCAAGAG-3'</td>
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       <td
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       <td>73.1</td>
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style="width: 414px; font-family: Courier New; height: 44px;">5'-<span
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style="color: rgb(80, 204, 56);"><span
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style="color: black;">GTTTCTTC</span>GAATTC</span>GCGGCCGCT<span
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style="color: rgb(80, 204, 56);">TCTAG</span><span
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style="color: rgb(88, 115, 248);"><span
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style="color: rgb(255, 102, 0);">A</span>TGGCAGCCGGTGTCTTCAAGAG</span>-3'</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">73.1</td>
     </tr>
     </tr>
     <tr>
     <tr>
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       <td>beta-caroten monooxygenase primer1 rv</td>
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       <td
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       <td>5'-CTAAATGGCATTGGGTGCAAACCATC-3'</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">NinaB
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      <td>58</td>
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rv</td>
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      <td>5'-CTGCAGCGGCCGCTACTAGTACTAAATGGCATTGGGTGCAAACCATC-3'</td>
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       <td
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       <td>72.4</td>
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style="width: 414px; font-family: Courier New; height: 44px;">5'-<span
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style="color: rgb(80, 204, 56);"><span
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style="color: black;">GTGTCTTC</span>CTGCAG</span>CGGCCGCT<span
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style="color: rgb(80, 204, 56);">ACTAGT</span>A<span
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style="color: rgb(88, 115, 248);">CTAAATGGCATTGGGTGCAAACCATC</span>-3'</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">72.4</td>
     </tr>
     </tr>
     <tr>
     <tr>
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       <td>beta-caroten monooxygenase primer2 fw^^</td>
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       <td
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       <td>5'-ATGGCAGCCGGTGTCTTCAAGAG-3'</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">NinaB
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      <td>58.8</td>
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2 fw**</td>
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      <td>5'-CCGCTTCTAGATGGCAGCCGGTGTCTTCAAGAG-3'</td>
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       <td
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       <td>68.1</td>
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style="width: 414px; font-family: Courier New; height: 44px;">5'-CCGCT<span
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style="color: rgb(80, 204, 56);">TCTAG</span><span
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style="color: rgb(88, 115, 248);"><span
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style="color: rgb(255, 102, 0);">A</span>TGGCAGCCGGTGTCTTCAAGAG</span>-3'</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">68.1</td>
     </tr>
     </tr>
     <tr>
     <tr>
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       <td>beta-caroten monooxygenase primer2 rv^^</td>
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       <td
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       <td>5'-CTAAATGGCATTGGGTGCAAACCATC-3'</td>
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style="width: 137px; font-family: Helvetica,Arial,sans-serif; height: 44px;">NinaB
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      <td>58</td>
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2 rv**</td>
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      <td>5'-CGCTACTAGTACTAAATGGCATTGGGTGCAAACCATC-3'</td>
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       <td
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       <td>65.6</td>
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style="width: 414px; font-family: Courier New; height: 44px;">5'-CGCT<span
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style="color: rgb(80, 204, 56);">ACTAGT</span>A<span
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style="color: rgb(88, 115, 248);">CTAAATGGCATTGGGTGCAAACCATC</span>-3'</td>
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       <td
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style="width: 51px; font-family: Helvetica,Arial,sans-serif; height: 44px;">65.6</td>
     </tr>
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</table><br>
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  </tbody>
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^ Mutation primers to introduce a silent mutation at position 822 in the operon<br>
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</table>
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^^ 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>
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(*) Mutation primers were designed to introduce a silent mutation at position 822 in the operon to eliminate an illegal PstI site.<br>
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(**) 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>
</p>

Revision as of 13:31, 21 October 2010

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