TABLE 2.
Oligonucleotides used in this study
| Application | Primer | Sequence (5′ to 3′) | Stranda | 5′ endb |
|---|---|---|---|---|
| Fusion constructions | Pic2RBamHI | GGATATGGATCCGTAACACAGACAGATTGCTG | − | 1131 |
| Pic3FEcoRI | TATCATGAATTCCTTCAGCTATTTTACTTTTAT | + | 934 | |
| Pic4FEcoRI | TGTAAAGAATTCGGAGAATCCATAATGAATAA | + | 973 | |
| Pic15FEcoRI | CATCATGAATTCCGGACGCTTACGAACTGACG | + | 21 | |
| Pic16FEcoRI | CTCCAGGAATTCCGGGGCGGTTCAGTTCACAA | + | 851 | |
| Pic20RBamHI | AAATAGGGATCCAAGCTAATGATAACCCGACGTT | − | 933 | |
| Shet1RBamHI | GACCGGGGATCCGGATGTCGCCATTCCACAGG | + | 2867 | |
| Shet8FEcoRI | CAGCGTGAATTCCCCTTCATACTGGCTCCTGT | − | 3267 | |
| Shet12FEcoRI | GTCAGCGAATTCCAGCGACAGTGTTTTCATTG | − | 3078 | |
| Shet19RBamHI | GGAGCCGGATCCAAGGGAATATTACGCTGAAC | + | 3262 | |
| Shet23FEcoRI | GAAAGCGAATTCCGCCATGTGCTTGGCGTCAT | − | 5622 | |
| Shet25FEcoRI | AAACAGGAATTCGCCAGTTGGCAAAACTAGTT | − | 5218 | |
| Shet26RBamHI | GATAAAGGATCCAAAGGACAGCCGGATGCTGT | + | 4958 | |
| Shet32RBamHI | CTGCTGGGATCCGGAGAGACCGTACTGCGTGA | + | 4908 | |
| Shet37FBamHI | TTACCAGGATCCGTCTTGCCCAGTTCAACCCC | − | 4838 | |
| Shet40FBamHI | ACCGGCGGATCCATGCCCGTCGCTGAAAAGAC | − | 3465 | |
| Shet41FBamHI | CAGTGAGGATCCGGCAAAAGCACCCGGGGCTG | − | 3396 | |
| Shet42FBamHI | GGTCAGGGATCCTCCGTCCGTCAGATATACAG | − | 3561 | |
| RT-PCR | Shet10F | GCCCTGTCACTTCCCAGTGT | − | 3170 |
| Shet13R | CGTAACGCCTCGCTGAACAG | + | 3102 | |
| Shet17F | GCAGGGTTGGGGTCACCCGA | − | 4138 | |
| Shet20FRT | CGCATATTGTCCTTTATCTG | − | 5018 | |
| Shet21FRT | GAAAGGCTGCCTTCCGGCAG | − | 5138 | |
| Shet22RRT | TAAGGCCGGCACCCGGGTGA | + | 4088 | |
| Shet24FRT | CGATACAAGCGTAGCAACGC | − | 1338 | |
| Shet25RRT | TATTGCCCCGTCACCGGGGG | + | 1008 | |
| Shet26RRT | ATGGGGGGACTGGCGCAAGC | + | 548 | |
| Shet28RRT | CCGGTGAAAACCTGGTATTC | + | 2038 | |
| Shet33FRT | GAATACCAGGTTTTCACCGG | − | 2058 | |
| Shet34RRT | GCGTTGCTACGCTTGTATCG | + | 1318 | |
| Shet35RRT | CTCTAATCCCGGGCAAACTT | + | 1688 | |
| Shet36FRT | AAGTTTGCCCGGGATTAGAG | − | 1708 | |
| Promoter deletions | INVPCR1 | TTTTCCTTTTGCGGCCGCCGAGTT | − | 500 |
| AGAGTTTTTTCCAGTATCGATTTT | ||||
| INVPCR2 | AAGGAAAAAAGCGGCCGCATGGAG | + | 971 | |
| AATCCATAATGAATAAAGTTTATTCTC | ||||
| INVPCR3 | TTTTCCTTTTGCGGCCGCGCGAG | + | 5218 | |
| CCTGTTTAAGATTCTGTGTAAATG | ||||
| INVPCR4 | AAGGAAAAAAGCGGCCGCTCTC | − | 4958 | |
| CTTTTATCCGTTTCTCCCCGGAC | ||||
| INVPCR5 | TTTTCCTTTTGCGGCCGCAGCCAG | + | 3252 | |
| TATGAAGGGAATATTACGCTGAAC | ||||
| INVPCR6 | AAGGAAAAAAGCGGCCGCCATA | − | 2868 | |
| TTCCCGGTCAGCTGACCATGAAAGAT | ||||
| Real-time RT-PCR | RealF | TGTACCTGGTGCCAATGATA | + | 1215 |
| RealRI | CCGATATCCTCCGTTATGCT | − | 1380 | |
| RealRII | CGATATACTGAGGCGATACAA | − | 1351 | |
| SetAReal | CCCTGATATTCCAGGGACAT | + | 2962 | |
| SetARealF | ATGGAAGTCAGCGTCTTTCA | − | 3096 | |
| 8/1RaceII | GACAGTGGCACCCTGATATT | + | 2952 | |
| Shet9F | GGTACCTTCCTCCGGAATGA | − | 3225 | |
| SetBReal | CTGAACAGTGACATTAAGTC | + | 3114 | |
| Tet1R | TAAGAGCCGCGAGCGATCCT | —c | —c | |
| Tet2R | GAGCGATCCTTGAAGCTGTC | —c | —c | |
| Tet3F | TGGATGGCCTTCCCCATTAT | —c | —c | |
| Real control F | CTGGATATACCACCGTTGATATA | —d | —d | |
| Real control I | GGGTGAACACTATCCCATAT | —d | —d | |
| Real control II | TCAGGCGGGCAAGAATGTGA | —d | —d |