Table 3. Peaks at genes not regulated by CovR.
| M5005 _Spy # | MGAS2221 # | Gene | Location | CovR binding in MGAS2221 | CovR binding in 2221-CovS-E281A | RPKL ratio in MGAS2221/2221-CovS-E281A |
|---|---|---|---|---|---|---|
| Virulence factor encoding genes | ||||||
| _0182 | _0222 | speG | intragenic | - | + | 0.50 |
| _1531 | _1545 | isp2 | promoter | + | - | 1.20 |
| _1540 | _1552 | endoS | promoter | + | - | 4.36 |
| Transcriptional regulators | ||||||
| _0106 | _0149 | rofA | intragenic | + | + | 0.46 |
| _0805 | _0827 | srtK | intragenic | + | - | 3.46 |
| _1512 | _1527 | codY | promoter | + | + | 3.34 |
| Transport and metabolism | ||||||
| _T0041 | _0012 | hpt | intragenic | + | + | 0.40 |
| _T0045 | _0013 | metalloprotease | promoter | + | - | 3.81 |
| _0148 | _0191 | sgaT | promoter | + | + | 0.69 |
| _0443 | _0487 | aroE | intragenic | + | + | 0.84 |
| _0444 | _0488 | hydrogenase | promoter | + | + | 1.31 |
| _0444 | _0488 | hydrogenase | intragenic | + | - | 1.31 |
| _0449 | _0492 | dehydrogenase | promoter | - | + | 0.55 |
| _0500/1 | _0538/9 | riboflavin | promoter | + | + | 1.39 |
| _0657 | __0691 | trxB | intragenic | + | + | 0.89 |
| _0713 | _0742 | bcaT | promoter | + | + | 0.59 |
| _0760/1 | _0787/8 | Amino acid ligase | promoter | - | + | 0.50 |
| _0829 | _0849 | potD | intragenic | - | + | 0.54 |
| _0943 | _0958 | cdd | intragenic | + | - | 3.44 |
| _1267 | __1275 | coaD | promoter | + | + | 0.51 |
| _1479 | _1496 | manL | promoter | - | + | 0.70 |
| _1501 | _1518 | muramidase | intragenic | - | + | 0.46 |
| _1513 | _1528 | aminotransferase | promoter | - | + | 0.47 |
| _1518 | _1533 | ABC transporter | promoter | + | - | 2.92 |
| _0240 | _1646 | intragenic | - | + | 0.35 | |
| _1768 | _1743 | ahpC | promoter | + | + | 1.00 |
| _1843 | _1817 | transglycosylase | promoter | + | + | 2.99 |
| _1856 | _1830/1 | guaA/ | promoter | + | + | 0.80 |
| _1862 | _1835 | ABC transporter | promoter | + | + | 2.42 |
| Synthesis, replication and cell division | ||||||
| _0001 | _0001 | dnaA | intragenic | + | - | 1.45 |
| _0035 | _0068 | ruvB | promoter | + | + | 1.67 |
| _0083 | _0128 | rpoB | promoter | + | + | 0.80 |
| _0308 | _0365 | scp1/scpA | intragenic | - | + | 0.40 |
| _0506 | _0544 | ftsW | promoter | - | + | 0.41 |
| _0594 | transposase | promoter | + | + | 0.48 | |
| _0597 | _0633 | ribosomal | intragenic | - | + | 0.36 |
| _1139 | _1152 | queA | intragenic | - | + | 0.41 |
| _1321 | _1327 | tRNA | intragenic | + | + | 4.16 |
| _1327 | _1341 | comfA | intragenic | - | + | 0.41 |
| _0239 | _1647 | mecA | intragenic | - | + | 0.38 |
| _1858 | _1832 | trsA | intragenic | + | + | 0.43 |
| Unknown function/hypothetical genes | ||||||
| _0032 | _0064 | intragenic | - | + | 0.94 | |
| _0032 | _0064 | intragenic | - | + | 0.49 | |
| _0180 | _0221 | hypo | promoter | + | - | 1.62 |
| _0403 | _0450 | hypo | promoter | + | - | 3.56 |
| _0446 | _0490 | hypo | intragenic | - | + | 0.39 |
| _0911 | _0927/8 | hypo/stk | promoter | + | - | 2.62 |
| _1048 | _1062 | hypo | intragenic | - | + | 0.52 |
| _1390/1 | _1405/6 | hypo | promoter | - | + | 0.35 |
| _1794 | _1769 | hypo | promoter | + | + | 0.47 |
| _1795 | _1771 | membrane protein | promoter | + | + | 5.34 |