Table 3.
Properties of ORFs identified in pFW213
| ORF | Position (nt) | Protein size (aa/kDa) | RBSa | Putative promoter sequenceb | Translation start codon | Protein with greatest similarityc | GenBank accession no.d |
|---|---|---|---|---|---|---|---|
| 1 | 502–1107 | 202/22.19 | AGAGG (8) | TGTGTTATAAT (70) | ATG | Conserved uncharacterized protein in S. sanguinis SK36 (202/202) | YP_001035954 |
| 2 | 1336–1524 | 63/7.13 | AGGGG (8) | TGGACG-N17-TATATC (74) | ATG | No significant similarity | NA |
| 3e | 1871–2125 | 85/9.88 | GGCAA (9) | TTGAGA-N15-TATTTT (136) | GTG | No significant similarity | NA |
| 4 | 2553–3838 | 432/51.5 | GAGGAA (8) | TGGTCA-N18-TTTAAA (118) | ATG | Mob of plasmid pBMYdx (392/426) | NP_981974 |
| 5 | 3928–4737 | 270/31.4 | AAAGG (8) | TTGACT-N18-TAGAAT (36) | ATG | RepB of plasmid pLME300 (242/259) | NP_783833.1 |
| 6 | 5615–6058 | 148/17.35 | None | TTCACA-N16-TAAACT (56) | GTG | No significant similarity | NA |
| 7 | 6206–6508 | 101/11.6 | AGAGG (4) | NA | TTG | RelE in S. downei F0415 (96/99) | EFQ56598.1 |
| 8 | 6502–6747 | 82/9.5 | GAGG (8) | TTGAAG-N18-TATAAT (26) | ATG | RelB in S. downei F0415 (77/79) | EFQ56528.1 |
a
The distance in nucleotides from the RBS to the translation start site is listed in parentheses.
b
The distance in nucleotides from the −10 element to the translation start site is listed in parentheses. NA, not available. N indicates G, A, T, or C.
c
The target that the ORF shares the highest homology to. Numbers in parentheses are the length of the alignment/target size, in amino acids.
d
GenBank sequence accession number of the locus listed under Similarity. NA, not available.
e
No significant product was detected by RT-PCR.