Table 4 Putative sRNA genes predicted as independent transcriptional units in IgRs of S. meliloti 1021 megaplasmids pSymA (smA#) and pSymB (smB#).
From: Prediction of Sinorhizobium meliloti sRNA genes and experimental detection in strain 2011
Gene or Designation1 | IgR length | Upstream ORF | Orientation Up sRNA Dn | Promoter2 | Predicted 5'-end3 | Predicted 3'-end4 | Length (nt)5 | Microarray detection6 | ||
|---|---|---|---|---|---|---|---|---|---|---|
smA1 | 719 | SMa0450 | > | > | > | s70 | 241667 | 241961 | 294 | >, C, O (*) (241991-241942) |
smA2a smA2b smA2c | 817 | SMa0585 | < < < | < < > | > > < | s54 s70 NN | 313672 * 313772 313667 | 313529 313529 314181 | 143–243 444 | >, A, B, C, H, S (314210-314161 313991–314040 314162–314211 313784–313833) |
smA3a smA3b | 1007 | SMa0922 | > | < | < | NN s70 | 512362 512439 | 512154 | 208–285 | <, A, C (512371–512420) |
smA4a smA4b | 714 | SMa0995 | < < | > > | > > | NN NN | 552600 552853 | 552980 | 127–280 | >, A, B, C, H, O, S (552880–552929 552801-552752 552954-552905) |
smA5 | 292 | SMa1024 | < | > | > | PhoB | 567336 * | 567465 | 129 | >, H, S (567397-567348) |
smA6 | 624 | SMa1245 | < | < | < | NN | 682304 | 682237 | 67 | <, O (682278-682229) |
smA7 | 879 | SMa1644 | > > | > > | < < | s70 NN, s70 | 916928 917145 | 917238 | 93–310 | - |
smA8 | 1124 | SMa2165 | > | > | > | NN | 1220442 | 1220807 | 365 | >, A, H, O, S (1220782–1220831) |
smB1 | 282 | SMb20203 | > | > | > | NN | 213506 | 213617 | 111 | - |
smB2 | 495 | SMb20366 | > | > | < | NN | 379143 | 379269 | 126 | >, H, S (379180–379131) |
smB3a smB3b smB3c | 750 | SMb20516 | > > > | < < < | < < < | NN NN s70 | 541963 541911 541833 | 541769 | 64–194 | <, H (541835–541884) |
smB4a smB4b | 592 | SMb20543 | < | < | < | NN, s70 s70 | 571374 571340 | 571217 | 123–157 | <, A, C (571271-571222 571222–571271) |
smB5a smB5b | 1623 | SMb20548 | > > | > > | > > | NN NN, s70 | 574477 574621 | 574763 | 142–286 | >, A, sB, C, H, O, S (574671-574622) |
smrB35 (smB6) | 751 | SMb20551 | < | > | > | s70 | 577731 | 577869 | 138 | >, O, S (577781-577732) |
smB7 | 196 | SMb21316 | < | > | > | s70 | 983786 | 983878 | 92 | >, S (*) (983845-983796) |
smB8 | 767 | SMb20872 | < | < | < | NN, s70 s70 | 1279964 1281110 | 1279836 | 128–274 | <, A, O (1279979–1280028 1280182-1280231) |
smB9 | 1014 | SMb20916 | < | > | > | s70 | 1325140 | 1325588 | 448 | >, H (1325459–1325508) |
smB10 | 506 | SMb20748 | < | < | > | NN | 1537794 | 1537673 | 121 | - |