TABLE 2.
Oligonucleotide primers
| Primers | Description | Source or reference |
|---|---|---|
| Mutagenic primers used to convert CC sites to FF or EE | ||
| AB1 | GGA ATT CGA GCT CGG TAC CCG GGG ATC AGG TAA ATT TGA TGT ACA TCA AAT GGA TC; converts upstream CC site to FF, in bold; the EcoRI site is underlined | This work |
| AB2 | GGA ATT CGA GCT CGG TAC CCG GGG ATC AGG TAA ATT TCA TGT ACA TGA AAT GGA TC; converts upstream CC site to EE, in bold; the EcoRI site is underlined | This work |
| AB5 | GAA TTA TGG CAG GAG TGA GGG GAG ATC TAT TTG ATG TAC ATC AAA TTT CCC T; converts CC at position −41.5 to FF, in bold; the BglII site is underlined | This work |
| AB6 | GGG GGG ATC TTT AAA CAT CGA TCT AGA TCT ATT TGA TGT ACA TCA AAT TTA CCT; converts CC at position −61.5 to FF, in bold; the BglII site is underlined | This work |
| General primers annealing to pAA121 or pRW50 | ||
| AB4 | GGC GTA TCA CGA GGC CCT TTC G; used to amplify promoter fragments from pAA121, anneals 5′ of EcoRI site | This work |
| D2591 | AGC AAG CTT TAT CTG TAT TCA TGG; used to amplify promoter fragments from pAA121 or pRW50; the HindIII site is underlined | 24 |
| Primers used to decrease or increase spacing between FF sites | ||
| FFΔ6 | ATG GAT CCG ATT CGG GGG ATC AGG TA; deletes 6 bases after the highlighted C in the spacer of FF(−90.5)FF(−41.5); used to make FF(−84.5)FF(−41.5) | This work |
| FFΔ4 | ATG GAT CCC AGA TTC GGG GGA TCA GG; deletes 4 bases after the highlighted C in the spacer of FF(−90.5)FF(−41.5); used to make FF(−86.5)FF(−41.5) | This work |
| FFΔ3 | ATG GAT CCT CAG ATT CGG GGG ATC AG; deletes 3 bases after the highlighted C in the spacer of FF(−90.5)FF(−41.5); used to make FF(−87.5)FF(−41.5) | This work |
| FFΔ2 | ATG GAT CCA TCA GAT TCG GGG GAT CA; deletes 2 bases after the highlighted C in the spacer of FF(−90.5)FF(−41.5); used to make FF(−88.5)FF(−41.5) | This work |
| FFΔ1 | ATG GAT CCG ATC AGA TTC GGG GGA TC; deletes 1 bases after the highlighted C in the spacer of FF(−90.5)FF(−41.5); used to make FF(−89.5)FF(−41.5) | This work |
| FF+1 | ATG GAT CCT AGA TCA GAT TCG GGG GAT; inserts 1 base shown in bold into the spacer of FF(−90.5)FF(−41.5); used to make FF(−91.5)FF(−41.5) | This work |
| FF+2 | ATG GAT CCA TAG ATC AGA TTC GGG GGA T; inserts 2 bases shown in bold into the spacer of FF(−90.5)FF(−41.5); used to make FF(−92.5)FF(−41.5) | This work |
| FF+3 | ATG GAT CCG ATA GAT CAG ATT CGG GGG AT; inserts 3 bases shown in bold into the spacer of FF(−90.5)FF(−41.5); used to make FF(−93.5)FF(−41.5) | This work |
| FF+4 | ATG GAT CCG GAT AGA TCA GAT TCG GGG GAT; inserts 4 bases shown in bold into the spacer of FF(−90.5)FF(−41.5); used to make FF(−94.5)FF(−41.5) | This work |
| FF+5 | ATG GAT CCT GGA TAG ATC AGA TTC GGG GGA T; inserts 5 bases shown in bold into the spacer of FF(−90.5)FF(−41.5); used to make FF(−95.5)FF(−41.5) | This work |
| FF(−96) | ATG GAT CCG ATT CGC AGA TCG ATC TG; deletes 6 bases after the highlighted C in the spacer of FF(−102.5)FF(−41.5); used to make FF(−96.5)FF(−41.5) | This work |
| FF(−97) | ATG GAT CCA GAT TCG CAG ATC GAT CT; deletes 5 bases after the highlighted C in the spacer of FF(−102.5)FF(−41.5); used to make FF(−97.5)FF(−41.5) | This work |
| FF(−98) | ATG GAT CCC AGA TTC GCA GAT CGA TC; deletes 4 bases after the highlighted C in the spacer of FF(−102.5)FF(−41.5); used to make FF(−98.5)FF(−41.5) | This work |
| FF(−99) | ATG GAT CCT CAG ATT CGC AGA TCG ATC; deletes 3 bases after the highlighted C in the spacer of FF(−102.5)FF(−41.5); used to make FF(−99.5)FF(−41.5) | This work |
| FF(−100) | ATG GAT CCA TCA GAT TCG CAG ATC GAT C; deletes 2 bases after the highlighted C in the spacer of FF(−102.5)FF(−41.5); used to make FF(−100.5)FF(−41.5) | This work |
| FF(−101) | ATG GAT CCG ATC AGA TTC GCA GAT CG; deletes 1 base after the highlighted C in the spacer of FF(−102.5)FF(−41.5); used to make FF(−101.5)FF(−41.5) | This work |