TABLE 1.
Oligonucleotide primer pairs used in RT-PCR of Fcs1, Fcs2, and Fcs3, analysis of the adjacent Hif cap DNA, and as probes in Southern blot hybridization
| Oligonucleotide name | Sequence (5′-3′) | Gene(s) (size [bp]) | Reference |
|---|---|---|---|
| f1 | GCTACTATCCAAGTCCAAATC | Hif cap specific (450) | 5 |
| f2 | CGCAATTATGGAAGAAAGCT | 5 | |
| HI-1 | CGTTTGTATGATGTTGATCCAGAC | bexA (343) | 5 |
| HI-2 | TGTCCATGTCTTCAAAATGATG | 5 | |
| ORF6 | GTTATTACTTGCGTGATCGT | hcsB (311) | 24 |
| Reg3b | GCAATGGCACATCATGCAC | This study | |
| Fcs1-a | CGTGACGCATTGAATAATAAATAC | fcs1 (720) | This study |
| Fcs1-b | CTGTGCCTTAGCATTTGCGGAG | This study | |
| Fcs2-a | GTTAATGCAAAAGATCAAG | fcs2 (1,149) | This study |
| Fcs2-b | CATAGTTATACCATGCTGTAACC | This study | |
| Fcs3-a | CCGGGAATCCATAGAGTTCA | fcs3 (992) | This study |
| Fcs3-b | GAGCATTCTATAATATGCAATGG | This study | |
| Fcs1-2-a | CGCTCCGCAAATGCTAA | fcs1-fcs2 (323) | This study |
| Fcs1-2-b | TTCTTCACTGTTATCAGGGCTAC | This study | |
| Fcs2-3-a | CGATGAATTATCTCTATCTTACAAGG | fcs2-fcs3 (417) | This study |
| Fcs2-3-b | CTGATGGTGTATGAACTCTATG | This study | |
| capfSodC | CATGCGCATTTTCCACGCCAGC | bexA-sodC (875) | This study |
| capfBexA | GGGATTGAGGCGCAATGATTCG | This study | |
| capfMerT | CCTTTTGGGTTGCCATAGCC | merT-sodC (774) | This study |
| SodC 3970-2951 | CACTCAGATCATCCTGCTCC | This study | |
| capf region III | CAGTACGAGTGGTATTTCAG | hcsB-HI1637 (700) | This study |
| HI1637 | AAATTTCCATTATGGGAAACG | This study |