Team:Paris/Notebook/Oligo

From 2008.igem.org

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(→Designed Oligonucleotides)
 
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Line 1: Line 1:
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{{Paris/Menu}}
 +
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==Designed Oligonucleotides==
{|
{|
-
|- style="background: #ccccff;"
+
|- style="background: #649CD7;"
-
! colspan="5" style="background: #ccccff;" | Table of Oligos
+
! colspan="5" style="background: #649CD7;" | Table of Oligos
-
|- style="background: #ccccff; text-align: center;"
+
|- style="background: #649CD7; text-align: center;"
|width=5%| Number
|width=5%| Number
|width=10%| Name
|width=10%| Name
-
|width=30%| Sequence
+
|width=40%| Sequence
|width=5%| Length
|width=5%| Length
|width=5%| Tm(°C)
|width=5%| Tm(°C)
-
|width=45%| Comments
+
|width=35%| Comments
-
|- style="background: #cccccc;"   
+
|- style="background: #dddddd;"   
-
| style="background: #ccffcc;" |O100
+
| style="background: #D4E2EF;" |O100
| FlgA-F
| FlgA-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGAGCATATCTCCTCCGCAGGTATCAAAAT
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGAGCATATCTCCTCCGCAGGTATCAAAAT
Line 16: Line 19:
|  
|  
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O101
+
| style="background: #D4E2EF;" | O101
| FlgA-R
| FlgA-R
| GTTTCTTCCTGCAGCGGCCGCTACTAGTAACAGTATCGCGATGATCGCCACGCTACGT
| GTTTCTTCCTGCAGCGGCCGCTACTAGTAACAGTATCGCGATGATCGCCACGCTACGT
Line 23: Line 26:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O102
+
| style="background: #D4E2EF;" | O102
| FlgB-F
| FlgB-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGACAGTATCGCGATGATCGCCACGCTACG
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGACAGTATCGCGATGATCGCCACGCTACG
Line 30: Line 33:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O103
+
| style="background: #D4E2EF;" | O103
| FlgB-R
| FlgB-R
| GTTTCTTCCTGCAGCGGCCGCTACTAGTAAGCATATCTCCTCCGCAGGTATCAAAATT
| GTTTCTTCCTGCAGCGGCCGCTACTAGTAAGCATATCTCCTCCGCAGGTATCAAAATT
Line 37: Line 40:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O104
+
| style="background: #D4E2EF;" | O104
| FlgK-F
| FlgK-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCAGCAGATGAAATCGATAAGCGACAAGG
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCAGCAGATGAAATCGATAAGCGACAAGG
Line 44: Line 47:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O105
+
| style="background: #D4E2EF;" | O105
| FlgK-R
| FlgK-R
| GTTTCTTCCTGCAGCGGCCGCTACTAGTAAACGCCGCCTGGGCCGCGTTCAGTCCGCT
| GTTTCTTCCTGCAGCGGCCGCTACTAGTAAACGCCGCCTGGGCCGCGTTCAGTCCGCT
Line 51: Line 54:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O106
+
| style="background: #D4E2EF;" | O106
| FlgM-F
| FlgM-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGAGCGGCGTTGTTGATGCAGATGGGAATA
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGAGCGGCGTTGTTGATGCAGATGGGAATA
Line 58: Line 61:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O107
+
| style="background: #D4E2EF;" | O107
| FlgM-R
| FlgM-R
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACGAAGTGCGATCAATACTCATGGTTTATT
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACGAAGTGCGATCAATACTCATGGTTTATT
Line 65: Line 68:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O108
+
| style="background: #D4E2EF;" | O108
| FlhB-F
| FlhB-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCCACGTCATATCAGGCGGTCTGATAAGG
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCCACGTCATATCAGGCGGTCTGATAAGG
Line 72: Line 75:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O109
+
| style="background: #D4E2EF;" | O109
| FlhB-R
| FlhB-R
| GTTTCTTCCTGCAGCGGCCGCTACTAGTAGTTTTGTCGTCGCTCTCGTCAGACACGTC
| GTTTCTTCCTGCAGCGGCCGCTACTAGTAGTTTTGTCGTCGCTCTCGTCAGACACGTC
Line 79: Line 82:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O110
+
| style="background: #D4E2EF;" | O110
| FlhDC-Uri-F
| FlhDC-Uri-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGTTGTATGTGCGTGTAGTGACGAGTACAG
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGTTGTATGTGCGTGTAGTGACGAGTACAG
Line 86: Line 89:
|
|
|Don't amplify the both OmpR binding site
|Don't amplify the both OmpR binding site
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O111
+
| style="background: #D4E2EF;" | O111
| FlhDC-Total-F
| FlhDC-Total-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGTCATTTTTGCTTGCTAGCGTACGGAAAA
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGTCATTTTTGCTTGCTAGCGTACGGAAAA
Line 93: Line 96:
|
|
|Amplify the both OmpR binding site
|Amplify the both OmpR binding site
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O112
+
| style="background: #D4E2EF;" | O112
| FlhDC(rbs)-R
| FlhDC(rbs)-R
| GTTTCTTCCTGCAGCGGCCGCTACTAGTATCCCACCCAGAATAACCAACTTTAT
| GTTTCTTCCTGCAGCGGCCGCTACTAGTATCCCACCCAGAATAACCAACTTTAT
Line 100: Line 103:
|
|
|Amplify the natural rbs of FlhD
|Amplify the natural rbs of FlhD
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O113
+
| style="background: #D4E2EF;" | O113
-
| FlhDC(nu)-R
+
| FlhDC(rbs)-R
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACAGAATAACCAACTTTATTTTTATG
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACAGAATAACCAACTTTATTTTTATG
| 54
| 54
|
|
-
|Don't amplify the natural rbs of FlhD (only promoter)
+
|Amplify the natural rbs of FlhD
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O114
+
| style="background: #D4E2EF;" | O114
-
| FliA-PCR1-F
+
| xx FliA-PCR1-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCCTGATTAACTGAGACTGACGGCAACGC
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCCTGATTAACTGAGACTGACGGCAACGC
| 58
| 58
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O115
+
| style="background: #D4E2EF;" | O115
-
| FliA-PCR1-R
+
| xx FliA-PCR1-R
| CAGCCCTGCGTTATATGAGTTATCGGCATGATTATCCGTTTCCGCAGGGTTTTTAATCG
| CAGCCCTGCGTTATATGAGTTATCGGCATGATTATCCGTTTCCGCAGGGTTTTTAATCG
| 59
| 59
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O116
+
| style="background: #D4E2EF;" | O116
-
| FliA-PCR2-F
+
| xx FliA-PCR2-F
| GAAACGGATAATCATGCCGATAACTCATATAACGCAGGGCTG
| GAAACGGATAATCATGCCGATAACTCATATAACGCAGGGCTG
| 42
| 42
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O117
+
| style="background: #D4E2EF;" | O117
-
| FliA-PCR2-R
+
| xx FliA-PCR2-R
-
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACCATTACACCTTCAGCGGTATAGAGTGAACTCACGATAAA
+
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACCATTACACCTTCA
 +
GCGGTATAGAGTGAACTCACGATAAA
| 69
| 69
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O118
+
| style="background: #D4E2EF;" | O118
| FliC-F
| FliC-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCCAGCGATGAAATACTTGCCATGCGATT
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCCAGCGATGAAATACTTGCCATGCGATT
Line 142: Line 146:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O119
+
| style="background: #D4E2EF;" | O119
| FliC-R
| FliC-R
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACAGCGAGAGGCTGTTGGTATTAATGACTT
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACAGCGAGAGGCTGTTGGTATTAATGACTT
Line 149: Line 153:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O120
+
| style="background: #D4E2EF;" | O120
| FliE-F
| FliE-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGGTCGCATTCATCGCGCACCTCGTGGCTG
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGGTCGCATTCATCGCGCACCTCGTGGCTG
Line 156: Line 160:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O121
+
| style="background: #D4E2EF;" | O121
| FliE-R
| FliE-R
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACTGGCTGATAACCCCTTCAATCCCCTGTA
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACTGGCTGATAACCCCTTCAATCCCCTGTA
Line 163: Line 167:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O122
+
| style="background: #D4E2EF;" | O122
| FliF-F
| FliF-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCTGGCTGATAACCCCTTCAATCCCCTGT
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCTGGCTGATAACCCCTTCAATCCCCTGT
Line 170: Line 174:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O123
+
| style="background: #D4E2EF;" | O123
| FliF-R
| FliF-R
-
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCTGGCTGATAACCCCTTCAATCCCCTGT
+
| GTTTCTTCCTGCAGCGGCCGCTACTAGTAGTCGCATTCATCGCGCACCTCGTGGCTGA
| 58
| 58
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O124
+
| style="background: #D4E2EF;" | O124
-
| FliL-F
+
| Oligo-pfliL-Forward-TRO
-
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCAGCGAGAGGCTGTTGGTATTAATGACT
+
| TCGAATTCGCGGCCGCTTCTAGAGCAAGGGCGTGTAACAGGCAAC
-
| 58
+
| 45
-
|
+
| 60°C
-
|
+
-
|- style="background: #cccccc;"
+
-
| style="background: #ccffcc;" | O125
+
-
| FliL-R
+
-
| GTTTCTTCCTGCAGCGGCCGCTACTAGTACCAGCGATGAAATACTTGCCATGCGATTT
+
-
| 58
+
|
|
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O125
 +
| Oligo-pfliL-Reverse-TRO
 +
| TCCTGCAGCGGCCGCTACTAGTAGTCATGTGTTGCGGTCTTCCTGTG
 +
| 47
 +
| 62°C
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O126
+
| style="background: #D4E2EF;" | O126
| Gene-EnvZ-F
| Gene-EnvZ-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAGGCGATTGCGCTTCTCGCCAC
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAGGCGATTGCGCTTCTCGCCAC
Line 198: Line 202:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O127
+
| style="background: #D4E2EF;" | O127
-
| Gene-EnvZ-R
+
| Gene-EnvZ-R-TRO
-
| GTTTCTTCGAATTCGCGGCCGCTTCTAGTTATTACCCTTCTTTTGTCGTGCCCTGCGCC
+
| GTTTCTTCCTGCAGCGGCCGCTACTAGTATTATTACCCTTCTTTTGTCGTGCCCTGCGCC
-
| 59
+
| 60
-
|
+
| 68°C
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O128
+
| style="background: #D4E2EF;" | O128
| Gene-FlgM-F
| Gene-FlgM-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAGTATTGATCGCACTTCGCCTC
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAGTATTGATCGCACTTCGCCTC
Line 212: Line 216:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O129
+
| style="background: #D4E2EF;" | O129
-
| Gene-FlgM-R
+
| Gene-FlgM-R-TRO
| GTTTCTTCGAATTCGCGGCCGCTTCTAGTTATTAGTTACTCTGCAAGTCTTGCTGCGCT
| GTTTCTTCGAATTCGCGGCCGCTTCTAGTTATTAGTTACTCTGCAAGTCTTGCTGCGCT
| 59
| 59
 +
| 59°C
|
|
-
|
+
|- style="background: #dddddd;"
-
|- style="background: #cccccc;"
+
| style="background: #D4E2EF;" | O130
-
| style="background: #ccffcc;" | O130
+
| Gene-FlhC-F
| Gene-FlhC-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAGTGAAAAAAGCATTGTTCAGG
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAGTGAAAAAAGCATTGTTCAGG
Line 226: Line 230:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O131
+
| style="background: #D4E2EF;" | O131
-
| Gene-FlhC-R
+
| Gene-FlhC-R-TRO
-
| GTTTCTTCGAATTCGCGGCCGCTTCTAGTTATTAAACAGCCTGTACTCTCTGTTCATCC
+
| GTTTCTTCCTGCAGCGGCCGCTACTAGTATTATTAAACAGCCTGTACTCTCTGTTCATCC
-
| 59
+
| 60
 +
| 60°C
|
|
-
|
+
|- style="background: #dddddd;"
-
|- style="background: #cccccc;"
+
| style="background: #D4E2EF;" | O132
-
| style="background: #ccffcc;" | O132
+
| Gene-FlhD-F
| Gene-FlhD-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGCATACCTCCGAGTTGCTGAAAC
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGCATACCTCCGAGTTGCTGAAAC
Line 240: Line 244:
|
|
|Don't amplify the natural rbs of FlhD
|Don't amplify the natural rbs of FlhD
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O133
+
| style="background: #D4E2EF;" | O133
-
| Gene-FlhD-R
+
| Gene-FlhD-R-TRO
-
| GTTTCTTCGAATTCGCGGCCGCTTCTAGTTATTAGGCCCTTTTCTTGCGCAGCGCTTCT
+
| GTTTCTTCCTGCAGCGGCCGCTACTAGTATTATTAGGCCCTTTTCTTGCGCAGCGCTTCT
-
| 59
+
| 60
-
|
+
| 68°C
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O134
+
| style="background: #D4E2EF;" | O134
| Gene-FlhDCrbs-F
| Gene-FlhDCrbs-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGACCGCATAAAAATAAAGTTGGTTAT
| GTTTCTTCGAATTCGCGGCCGCTTCTAGACCGCATAAAAATAAAGTTGGTTAT
Line 254: Line 258:
|
|
|Amplify the natural rbs of FlhD so that we have FlhD and FlhC with both their natural rbs
|Amplify the natural rbs of FlhD so that we have FlhD and FlhC with both their natural rbs
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O135
+
| style="background: #D4E2EF;" | O135
-
| Gene-FliA-F
+
| xx Gene-FliA-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAATTCACTCTATACCGCTGAAG
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAATTCACTCTATACCGCTGAAG
| 53
| 53
|
|
|Don't Amplify the natural rbs of FliA
|Don't Amplify the natural rbs of FliA
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O136
+
| style="background: #D4E2EF;" | O136
-
| Gene-FliA-R
+
| xx Gene-FliA-R
| GTTTCTTCGAATTCGCGGCCGCTTCTAGTTATTATAACTTACCCAGTTTAGTGCGTAAC
| GTTTCTTCGAATTCGCGGCCGCTTCTAGTTATTATAACTTACCCAGTTTAGTGCGTAAC
| 59
| 59
Line 269: Line 273:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O137
+
| style="background: #D4E2EF;" | O137
-
| Gene-FliArbs-F
+
| xx Gene-FliArbs-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGTAATCATGCCGATAACTCATATAAC
| GTTTCTTCGAATTCGCGGCCGCTTCTAGTAATCATGCCGATAACTCATATAAC
| 53
| 53
|
|
|Amplify the natural rbs of FliA
|Amplify the natural rbs of FliA
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O138
+
| style="background: #D4E2EF;" | O138
| Gene-OmpR-F
| Gene-OmpR-F
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGCAAGAGAACTACAAGATTCTGG
| GTTTCTTCGAATTCGCGGCCGCTTCTAGATGCAAGAGAACTACAAGATTCTGG
Line 283: Line 287:
|
|
|
|
-
|- style="background: #cccccc;"
+
|- style="background: #dddddd;"
-
| style="background: #ccffcc;" | O139
+
| style="background: #D4E2EF;" | O139
| Gene-OmpR-R
| Gene-OmpR-R
-
| GTTTCTTCGAATTCGCGGCCGCTTCTAGTTATTATGCTTTAGAGCCGTCCGGTACAAAG
+
| GTTTCTTCCTGCAGCGGCCGCTACTAGTATTATTATGCTTTAGAGCCGTCCGGTACAAAG
-
| 59
+
| 60
 +
| 62°C
|
|
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O140
 +
| PlasTest_GFP_Rv
 +
| CCCTGCAGTTAATTAATATAAACGCAGAAAGGCCAC
 +
| 36
 +
|54
 +
|Amplify E0240 with a PacI and a PstI restriction site at the end
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O141
 +
| PTst_GFPrbs+_F
 +
| GCCTGCAGTCACACAGGAAAGTACTAGATGC
 +
| 31
 +
|56
 +
|Amplify E0240 with the promoter and a PstI restriction site at the beginning
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O142
 +
| PTst_GFPrbs-_F
 +
| GCCTGCAGATGCGTAAAGGAGAAGAACTTTTC
 +
| 32
 +
| 55
 +
| Amplify E0240 without the promoter and a PstI restriction site at the beginning
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O143
 +
| G-PCRmut-1F
 +
| GGCTGTTTATCGTGAACTCACTCTATACCG
 +
| 30
 +
| 62
 +
| Mutate the EcoRI site of FliA ( without biobrick prefix)
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O144
 +
| P-FliArbs-R
 +
| CTTCCTGCAGCGGCCGCTACTAGTATTAAACAGCCCTGCGTTATATG
 +
| 47
 +
| 55 - 72
 +
| Amplify the rbs of FliA
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O145
 +
| P-xb-FliA-F
 +
| GCTTCTAGAGCCTGATTAACTGAGACTGAC
 +
| 30
 +
| 51 - 62
 +
| No EcoRI site on prefix for amplifying promoter
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O146
 +
| P-FliA-R
 +
| GTTTCTTCCTGCAGCGGCCGCTACTAGTATTATATGAGTTATCGGCATGAT
 +
| 51
 +
| 51 - 71
 +
|
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O147
 +
| G-xb-FliA-F
 +
| CTTCTAGAACGCAGGGCTGTTTATCGTG
 +
| 28
 +
| 57 - 63
 +
| Amplify the gene with its natural rbs
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O148
 +
| G-mecoFliA-F
 +
| TCGAATTCGCGGCCGCTTCTAGACAGGGCTGTTTATCGTGAACTCACTCTATA
 +
| 53
 +
| 61 - 74
 +
| Oligo for second run PCR
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O149
 +
| G-spe-FliA-R
 +
| GCTACTAGTATTATTATAACTTACCCAGTTTAGTGCG
 +
| 37
 +
| 53 - 60
 +
| Oligo FliA for non-mutated sequence
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O150
 +
| G-FliA-R
 +
| TCCTGCAGCGGCCGCTACTAGTATTATTATAACTTACCCAGTTTAGTGCG
 +
| 50
 +
| 53 - 71
 +
| Oligo for complete mutated sequence - second run of PCR
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O151
 +
| PG-xb-FliA-R
 +
| GCTTCTAGAATTATTATAACTTACCCAGTTTAGTGCG
 +
| 37
 +
| 53 - 61
 +
| Oligo reverse with xbaI site for non mutated sequence
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O152
 +
| G-PCRmut-2R
 +
| GGGCAGTCGAACTTGCAGGCGCAATGCTTC
 +
| 30
 +
| 71
 +
| Oligo for first run of PCR, mutate PstI.
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O153
 +
| G-PCRmut-3F
 +
| GAAGCATTGCGCCTGCAAGTTCGACTGCCC
 +
| 30
 +
| 71
 +
| Oligo for fisrt run of PCR, mutate PstI.
 +
|- style="background: #dddddd;"
 +
| style="background: #D4E2EF;" | O154
 +
| pFlhDC-tto-F
 +
| GTTTCTTCGAATTCGCGGCCGCTTCTAGAGGTCGCTGTCGTTCTCAAAATCGGTG
 +
| 55
 +
| 62 - 75
|
|
|}
|}
 +
|}<br style="clear:both" />
 +
<br>
 +
<br>

Latest revision as of 02:50, 27 September 2008

Designed Oligonucleotides

Table of Oligos
Number Name Sequence Length Tm(°C) Comments
O100 FlgA-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGAGCATATCTCCTCCGCAGGTATCAAAAT 58
O101 FlgA-R GTTTCTTCCTGCAGCGGCCGCTACTAGTAACAGTATCGCGATGATCGCCACGCTACGT 58
O102 FlgB-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGACAGTATCGCGATGATCGCCACGCTACG 58
O103 FlgB-R GTTTCTTCCTGCAGCGGCCGCTACTAGTAAGCATATCTCCTCCGCAGGTATCAAAATT 58
O104 FlgK-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCAGCAGATGAAATCGATAAGCGACAAGG 58
O105 FlgK-R GTTTCTTCCTGCAGCGGCCGCTACTAGTAAACGCCGCCTGGGCCGCGTTCAGTCCGCT 58
O106 FlgM-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGAGCGGCGTTGTTGATGCAGATGGGAATA 58
O107 FlgM-R GTTTCTTCCTGCAGCGGCCGCTACTAGTACGAAGTGCGATCAATACTCATGGTTTATT 58
O108 FlhB-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCCACGTCATATCAGGCGGTCTGATAAGG 58
O109 FlhB-R GTTTCTTCCTGCAGCGGCCGCTACTAGTAGTTTTGTCGTCGCTCTCGTCAGACACGTC 58
O110 FlhDC-Uri-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGTTGTATGTGCGTGTAGTGACGAGTACAG 58 Don't amplify the both OmpR binding site
O111 FlhDC-Total-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGTCATTTTTGCTTGCTAGCGTACGGAAAA 58 Amplify the both OmpR binding site
O112 FlhDC(rbs)-R GTTTCTTCCTGCAGCGGCCGCTACTAGTATCCCACCCAGAATAACCAACTTTAT 54 Amplify the natural rbs of FlhD
O113 FlhDC(rbs)-R GTTTCTTCCTGCAGCGGCCGCTACTAGTACAGAATAACCAACTTTATTTTTATG 54 Amplify the natural rbs of FlhD
O114 xx FliA-PCR1-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCCTGATTAACTGAGACTGACGGCAACGC 58
O115 xx FliA-PCR1-R CAGCCCTGCGTTATATGAGTTATCGGCATGATTATCCGTTTCCGCAGGGTTTTTAATCG 59
O116 xx FliA-PCR2-F GAAACGGATAATCATGCCGATAACTCATATAACGCAGGGCTG 42
O117 xx FliA-PCR2-R GTTTCTTCCTGCAGCGGCCGCTACTAGTACCATTACACCTTCA

GCGGTATAGAGTGAACTCACGATAAA

69
O118 FliC-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCCAGCGATGAAATACTTGCCATGCGATT 58
O119 FliC-R GTTTCTTCCTGCAGCGGCCGCTACTAGTACAGCGAGAGGCTGTTGGTATTAATGACTT 58
O120 FliE-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGGTCGCATTCATCGCGCACCTCGTGGCTG 58
O121 FliE-R GTTTCTTCCTGCAGCGGCCGCTACTAGTACTGGCTGATAACCCCTTCAATCCCCTGTA 58
O122 FliF-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGCTGGCTGATAACCCCTTCAATCCCCTGT 58
O123 FliF-R GTTTCTTCCTGCAGCGGCCGCTACTAGTAGTCGCATTCATCGCGCACCTCGTGGCTGA 58
O124 Oligo-pfliL-Forward-TRO TCGAATTCGCGGCCGCTTCTAGAGCAAGGGCGTGTAACAGGCAAC 45 60°C
O125 Oligo-pfliL-Reverse-TRO TCCTGCAGCGGCCGCTACTAGTAGTCATGTGTTGCGGTCTTCCTGTG 47 62°C
O126 Gene-EnvZ-F GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAGGCGATTGCGCTTCTCGCCAC 53
O127 Gene-EnvZ-R-TRO GTTTCTTCCTGCAGCGGCCGCTACTAGTATTATTACCCTTCTTTTGTCGTGCCCTGCGCC 60 68°C
O128 Gene-FlgM-F GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAGTATTGATCGCACTTCGCCTC 53
O129 Gene-FlgM-R-TRO GTTTCTTCGAATTCGCGGCCGCTTCTAGTTATTAGTTACTCTGCAAGTCTTGCTGCGCT 59 59°C
O130 Gene-FlhC-F GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAGTGAAAAAAGCATTGTTCAGG 53
O131 Gene-FlhC-R-TRO GTTTCTTCCTGCAGCGGCCGCTACTAGTATTATTAAACAGCCTGTACTCTCTGTTCATCC 60 60°C
O132 Gene-FlhD-F GTTTCTTCGAATTCGCGGCCGCTTCTAGATGCATACCTCCGAGTTGCTGAAAC 53 Don't amplify the natural rbs of FlhD
O133 Gene-FlhD-R-TRO GTTTCTTCCTGCAGCGGCCGCTACTAGTATTATTAGGCCCTTTTCTTGCGCAGCGCTTCT 60 68°C
O134 Gene-FlhDCrbs-F GTTTCTTCGAATTCGCGGCCGCTTCTAGACCGCATAAAAATAAAGTTGGTTAT 53 Amplify the natural rbs of FlhD so that we have FlhD and FlhC with both their natural rbs
O135 xx Gene-FliA-F GTTTCTTCGAATTCGCGGCCGCTTCTAGATGAATTCACTCTATACCGCTGAAG 53 Don't Amplify the natural rbs of FliA
O136 xx Gene-FliA-R GTTTCTTCGAATTCGCGGCCGCTTCTAGTTATTATAACTTACCCAGTTTAGTGCGTAAC 59
O137 xx Gene-FliArbs-F GTTTCTTCGAATTCGCGGCCGCTTCTAGTAATCATGCCGATAACTCATATAAC 53 Amplify the natural rbs of FliA
O138 Gene-OmpR-F GTTTCTTCGAATTCGCGGCCGCTTCTAGATGCAAGAGAACTACAAGATTCTGG 53
O139 Gene-OmpR-R GTTTCTTCCTGCAGCGGCCGCTACTAGTATTATTATGCTTTAGAGCCGTCCGGTACAAAG 60 62°C
O140 PlasTest_GFP_Rv CCCTGCAGTTAATTAATATAAACGCAGAAAGGCCAC 36 54 Amplify E0240 with a PacI and a PstI restriction site at the end
O141 PTst_GFPrbs+_F GCCTGCAGTCACACAGGAAAGTACTAGATGC 31 56 Amplify E0240 with the promoter and a PstI restriction site at the beginning
O142 PTst_GFPrbs-_F GCCTGCAGATGCGTAAAGGAGAAGAACTTTTC 32 55 Amplify E0240 without the promoter and a PstI restriction site at the beginning
O143 G-PCRmut-1F GGCTGTTTATCGTGAACTCACTCTATACCG 30 62 Mutate the EcoRI site of FliA ( without biobrick prefix)
O144 P-FliArbs-R CTTCCTGCAGCGGCCGCTACTAGTATTAAACAGCCCTGCGTTATATG 47 55 - 72 Amplify the rbs of FliA
O145 P-xb-FliA-F GCTTCTAGAGCCTGATTAACTGAGACTGAC 30 51 - 62 No EcoRI site on prefix for amplifying promoter
O146 P-FliA-R GTTTCTTCCTGCAGCGGCCGCTACTAGTATTATATGAGTTATCGGCATGAT 51 51 - 71
O147 G-xb-FliA-F CTTCTAGAACGCAGGGCTGTTTATCGTG 28 57 - 63 Amplify the gene with its natural rbs
O148 G-mecoFliA-F TCGAATTCGCGGCCGCTTCTAGACAGGGCTGTTTATCGTGAACTCACTCTATA 53 61 - 74 Oligo for second run PCR
O149 G-spe-FliA-R GCTACTAGTATTATTATAACTTACCCAGTTTAGTGCG 37 53 - 60 Oligo FliA for non-mutated sequence
O150 G-FliA-R TCCTGCAGCGGCCGCTACTAGTATTATTATAACTTACCCAGTTTAGTGCG 50 53 - 71 Oligo for complete mutated sequence - second run of PCR
O151 PG-xb-FliA-R GCTTCTAGAATTATTATAACTTACCCAGTTTAGTGCG 37 53 - 61 Oligo reverse with xbaI site for non mutated sequence
O152 G-PCRmut-2R GGGCAGTCGAACTTGCAGGCGCAATGCTTC 30 71 Oligo for first run of PCR, mutate PstI.
O153 G-PCRmut-3F GAAGCATTGCGCCTGCAAGTTCGACTGCCC 30 71 Oligo for fisrt run of PCR, mutate PstI.
O154 pFlhDC-tto-F GTTTCTTCGAATTCGCGGCCGCTTCTAGAGGTCGCTGTCGTTCTCAAAATCGGTG 55 62 - 75



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