Team:SDU-Denmark/primers
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{{:Team:SDU-Denmark/navi2}} | {{:Team:SDU-Denmark/navi2}} | ||
<div id="subnavi"> | <div id="subnavi"> | ||
- | <div id=" | + | <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. All primers were kindly provided by 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> |
- | <table style="text-align: left;" border="1" | + | |
- | + | 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 | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">Primer |
- | + | name</td> | |
- | <td | + | <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> | + | <td |
- | <td>5'- | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">FlhDC |
- | + | fw</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> | + | <td |
- | <td>5'- | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">FlhDC |
- | + | rv</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> | + | <td |
- | <td>5'- | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">FlhDC |
- | + | mutation fw*</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> | + | <td |
- | <td>5'- | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">FlhDC |
- | + | mutation rv*</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 | + | <td |
- | <td>5'- | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">Photosensor |
- | + | fw</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 | + | <td |
- | <td>5'- | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">Photosensor |
- | + | rv</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 | + | <td |
- | <td>5'- | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">NinaB |
- | + | fw</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 | + | <td |
- | <td>5'- | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">NinaB |
- | + | rv</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 | + | <td |
- | <td>5'- | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">NinaB |
- | + | 2 fw**</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 | + | <td |
- | <td>5'- | + | style="font-family: Helvetica,Arial,sans-serif; height: 44px; width: 60px;">NinaB |
- | + | 2 rv**</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> | ||
- | </ | + | </tbody> |
- | + | </table> | |
- | + | <br> | |
+ | </body> | ||
+ | </html> | ||
- | <br> | + | (*) 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> | |
- | <br> | + | |
+ | </p> | ||
+ | |||
</div> | </div> | ||
- | |||
- | |||
</div> | </div> |
Latest revision as of 21:47, 27 October 2010