TABLE 2.
Oligonucleotides used in this study
| Primer name | Sequence (5′-3′)a |
|---|---|
| Primers for construction of mutants | |
| P183 | ACCACCACTTTGAGGGTCACGTG CCCCGGGAATAGCTAACATA ATAGCAAATGT |
| P184 | GCACGTGACCGTCAAAGTGGTGGT |
| P298 | ACGCCCGCGGAAGCTTAATGT ATTAAATTAT |
| P299 | ACGCCCGCGGAGATGTTAATG CATAACCCTG |
| P464 | CGCGCGGTTGAGCTCCCTA TCAT |
| P465 | CATTAACAGGAGCTCGTTCG TGCC |
| Primers for real-time RT-PCR | |
| HD0281F | TCGTTGAGGCTGCTTGTAGT |
| HD0281R | AAAGGTGGAACATCTCGTCC |
| HD1629F | CAAGCAGGATCGGTATGTTC |
| HD1629R | TAACGCCATAGCCATCAGAG |
| HD1160F | TAGCCACGTGTTAGGCATTC |
| HD1160R | CTTTACGATTACGGGTTGCA |
| HD0472F | ATGCGCGTAGGCAACATA |
| HD0472R | TGAGCCACTTCTTATTGTGGA |
| HD0312F | CCTTTGGTGCTGCAGTTAGA |
| HD0312R | TCGTATTGTTGTGGTGCATG |
| HD0564F | GGATTTACTCGGCGAAAGAG |
| HD0564R | CCATACCACGGACAAATTCA |
| HD0850F | ATTGACGTGGCATACCAGAA |
| HD0850R | CTGCTGTGCTGTTCTCACAA |
| HD0405F | AAAGATCCGCTACTGGCATT |
| HD0405R | TGTGCGCTACAATTTGTTCA |
| HD0903F | TGCAGTAGGTATCCGCATTG |
| HD0903R | GCACGATTGAAATCACCAAC |
| HD0998F | TAGCCGCTTCTTTGGGTAAT |
| HD0998R | TGAGTGAAGCCCGTAATCTG |
| HD0349F | GTTGTACGGCGTGTATGGAG |
| HD0349R | CACCTTGTGTTGCGGTATGT |
| HD1326F | CGGGTTAATGGGTTTATTGG |
| HD1326R | CCCAAATGGAGCATATCAGA |
| HD2013F | AGGTTCAGCGGGTAAATC |
| HD2013R | ATATCTTTGCCTTGCGCTTT |
| HD0765F | GCTAATTTGCCACACGCTTA |
| HD0765R | CCGGAATATCAACCCATTTC |
| HD0266F | GGTACCATCGTTTCAATTCGT |
| HD0266R | TAAGGCACGTCCAGTACCAC |
| HD0189F | TTGCACACGCTACACGTAAA |
| HD0189R | TAGCTTGAGCAGCTTGCATT |
| HD0815F | CGGAACAAGTTACCAAGCAA |
| HD0815R | TTCACCACCAGATGCAATTT |
| HD0812F | CGAAATTGTTGGGTTTGATG |
| HD0812R | CTTGCTTCATTCGTGCATCT |
| HD1076F | AGCGTTAGTGCGTTGGTATG |
| HD1076R | TGCAAACCCTTAGCTTTGTG |
| HD1186F | GGCGAACAAGCTATTTGTGA |
| HD1186R | TTGTTTGCCTGCCTTAACTG |
| HD1456F | GACACGTTCGGGTGATATTG |
| HD1456R | GACGAGCAGCATCATCAGTT |
| HD0436F | CCACTTTAATTGGCGGAGAT |
| HD0436R | TCCTATGGTGCCAGAAACAA |
| HD1468F | TGGATCTTCACCTGATTCCA |
| HD1468R | CCTCTGCCGTCATTATCAAA |
| Primers for EMSAs | |
| HD1433P(F) | TTAAGCATTTTTATTTACTTT |
| HD1433P(R) | GCAAGCAAACGTAGTGAGCCA |
| HD1312P(F) | AAACCGATCTGGTCTAACCAG |
| HD1312P(R) | AAATATAAAATAAATTATGTT |
| HD0281P(F) | AATACTCTAATCAAGTTGACGT |
| HD0281P(R) | GCTGATATACTTATTGTTCCC |
| HD0046P(F) | TTTTTATTTTGCAAATTATAC |
| HD0046P(R) | TTCCATTTTAATTTTCCTCTA |
| HD0769P(F) | TGAATTGGAGTGGACCAGGAC |
| HD0769P(R) | ATAGTAGAACAAGCTAATCCC |
| HD0260P(F) | ATGGTGAAAAATTCACCGCTT |
| HD0260P(R) | ACACTTAAACCTAAGACTAAT |
| HD0638P(F) | TACATCTGATTGATATT |
| HD0638P(R) | TTCATTAGTGTTCCTTAA |
| HD1788P(F) | TTCATTAGCCCGTAATACGAT |
| HD1788P(R) | ATGTTTAAATAAACTCATTAA |
| HD2025P(F) | ATTAAAAACAATAGTACTTA |
| HD2025P(R) | GTTTGCATATTGCTTTCGGCA |
| HD1737P(F) | CAGGGTTGATAATACATCAAT |
| HD1737P(R) | ACTAACGCAAAAAATAAC TTTA |
| HD0649P(F) | ATTCAGTATGCCTAATCCTAT |
| HD0649P(R) | CTTTTTCAGTATGTTCATAAT |
a
Bold text indicates complementary sequences for use in overlapping extension PCR. Underlining indicates restriction sites as described in Materials and Methods.