Table 1. Initial CoSBR experiment to determine lagging versus leading strand preference.
| Gene | BAC clone ID | Gene orientation | Oligo (ID) | # kanR colonies | # loxP sites | Frequency (%) |
|---|---|---|---|---|---|---|
| Casp1 | RP23–78A8 | Sp6 -> T7 | Lg (1) | 369 | 23 | 6.2 |
| Ld (2) | 225 | 7 | 3.1 | |||
| RP23–101E5 | T7 -> Sp6 | Lg (2) | 131 | 2 | 1.5 | |
| Ld (1) | 154 | 1 | 0.65 | |||
| Nnmt | RP23–268F15 | T7 -> Sp6 | Lg (3) | 318 | 15 | 4.7 |
| Ld (4) | 248 | 3 | 1.2 | |||
| RP23–280F20 | T7 -> Sp6 | Lg (3) | 224 | 1 | 0.45 | |
| Ld (4) | 148 | 0 | 0 | |||
| Tnfsf15 | RP23–162E5 | T7 -> Sp6 | Lg (5) | 143 | 6 | 3.5 |
| Ld (6) | 178 | 0 | 0 | |||
| Keap1 | RP23–311A18 | T7 -> Sp6 | Lg (7) | 357 | 4 | 1.1 |
| Ld (8) | 345 | 4 | 1.2 | |||
| Usp10 | RP23–371H2 | Sp6 -> T7 | Lg (9) | 428 | 9 | 2.1 |
| Ld (10) | 463 | 8 | 1.7 | |||
| RP23–1P14 | Sp6 -> T7 | Lg (9) | 422 | 1 | 0.24 | |
| Ld (10) | 414 | 8 | 1.9 |
Gene orientation: Transcriptional orientation of the gene of interest relative to orientation of genomic insert in pBACe3.6 BAC backbone. Lg: lagging-strand oligo. Ld: leading strand oligo. Oligo (ID) refers to sequences listed in Supplementary Table S1. For each experiment the number of kanamycin-resistant colonies and number of kanR BACs containing a loxP site are listed.