Table 2.
Regulatory elements in the genomes of LIMEzero and LIMElight
| Position | ORFa | Regulatory element sequenceb |
|---|---|---|
| Host promoters | ||
| LIMEzero | ||
| 801_847 | 1 | TAGTGCTTGTCAGATGGTTCGGATTGTTGTGTAATTCTCATCACCGA |
| 928_974 | 1 | CGCTCTTTATACAATCTGGTCTGGTTCTGTGATAGTCCACCAATCAA |
| 1399_1445 | 1 | AAGTACTTGACGGTTACAACGCAGTATGATGTAATTCGTCTCAAGCA |
| LIMElight | ||
| 500_546 | 1 | GTTATTTGTTATTTCGTTCGTCGCCTCACTCTATAACGTCAATCATA |
| 549_595 | 1 | TATCTTTGAACGTAATCCGTTTATTGATAGGTAAAACCTTGTGTACA |
| 805_849 | 1 | AGTGCTTGCAATCTCTAAATCATTCATC---TAGTATTCAATCCATC |
| 967_1010 | 1 | AGTGTTTGACAAGTGAATCCAGAAGGAT---TAGATTAGTTAGCAAC |
| 1097_1140 | 1 | AACGCTTGACAAGTTGAACGATAACGAT---TAACTTAGATAGCAAG |
| 19347_19391 | 36 | TCGTCTTGATAAAGCCGAGTGAGTGGTGT--TATAATCAATGGACAT |
| 26470_26513 | 43 | ATATTTTCAGTGTTCCTACGGGAGCACT---TATAAATACCATTCAC |
| Consensus promoter, E. coli | ------TTGACA(−35)--------------TATAAT(−10)----- | |
| Phage promoters | ||
| LIMEzero | ||
| 7294_7313 | 17 | TTTAAAGGCAATCACTAAGG |
| 20330_20349 | 34 | TATAAAGGCAAGCACTATGA |
| LIMElight | ||
| 4898_4922 | 12 | AATGGTGATGCACGTTATAGACCGA |
| 14061_14085 | 27 | ATTAAAGAGTGACGTTATAGAGAGA |
| 15535_15559 | 29 | TTTGAAGATACACGTTATAGAGAGC |
| 22024_22048 | 37 | AATGATGATGTACGTTATAGAGAGA |
| Factor-independent terminators | ||
| LIMEzero | ||
| 7255_7284 | 17 | AAGCCCATTTAAATAAGTGGGCTTTATTAT |
| 25202_25236 | 41 | AGCCCTGGACTCGTCCAGGGTTTGATTATGTTTT |
| LIMElight | ||
| 26239_26279 | 42 | TCTAAGGGAGCCTTTCGAGGTTCCCTTATTTGCC |
| 44216_44250 | DTR | GCAGCTGGTGTAATCCAGCACCTGAAATTTATT |
a
Number of the ORF downstream of the element.
b
Underlined sequences represent the −35 and −10 boxes for the host promoters and the palindromic sequence for the terminators.