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Copyright: Human Genome Center, Inst. Med. Sci., Univ. Tokyo; 1999-2006
Contact: Kenta Nakai |
| Regulated Operon: | skf |
| Genes | Synonyms | Direction | Genome position | Function | COG ID | Genus clusters |
|---|---|---|---|---|---|---|
| ybcO | skfA | + | 213926..214093 | |||
| ybcP | ybcQ, skfB | + | 214160..215392 | |||
| ybcS | skfC | + | 215389..215946 | |||
| ybcT | skfD | + | 215943..216878 | |||
| ybdA | skfE | + | 216897..217616 | COG1131 | ||
| ybdB | skfF | + | 217681..219027 | |||
| ybdD | skfG | + | 219074..219487 | |||
| ybdE | skfH | + | 219593..220018 | COG0526 |
| Operon evidence: | Northern blotting (6.5 kb transcript) |
|---|---|
| Reference: | Gonzalez-Pastor JE, et al. (2003), Allenby NEE, et al. (2006) |
| Comments: | Northern blotting during during phosphate limitation showed an intense 0.25 kb skfA-specific transcript, and a weaker 6.5 kb skfABCDEFGh transcript. The skfA transcript is stabilized by a stem-loop structure in the skfA-skfB intergenic region. |
| Binding factor |
Regulation | Location | Absolute position | Binding seq.(cis-element) | Experimental evidence |
|---|---|---|---|---|---|
| AbrB | Negative | ND | ND | ND |
Fujita M, et al. (2005): RG |
| PhoP | Positive | ND | ND | ND |
Allenby NEE, et al. (2006): DB RG NB GS |
| SigA | Promoter | -64:+4 | 213809..213876 | AATTTTTAGGATAATATACAAAATCCCCCTTACTTCGACAATTGCAATCTGGTATTATCGTATCGCAT |
Chen G, et al. (2006): PE |
| Spo0A | Positive | -64:+4 | 213809..213876 | AATTTTTAGGATAATATACAAAATCCCCCTTACTTCGACAATTGCAATCTGGTATTATCGTATCGCAT |
Fujita M, et al. (2005): RG OV, gfp fusion, GS Chen G, et al. (2006): FT, binding site mutation |
| Terminator sequence | Absolute position | Position from stop codon | Free energy [kcal/mol] |
Downstream of |
|---|---|---|---|---|
| TAACATTTGAGAATAGGGAGTTGAGCGTATTTGCTTATACTCCTTATTTTCTCTTAAG >>>>>>>>>> <<<<<<<<<<< |
ybcO | |||
| ATGAAACGGTCCTTCCTATAAGCAGGAAGGTTTTTTAATGAAATA >>>>>>> <<<<<<< |
ybdE |
|