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Table 3 Novel non-coding small RNAs in B. cenocepacia J2315 with hits in Rfam database

From: Genome-wide transcription start site profiling in biofilm-grown Burkholderia cenocepacia J2315

Preliminary name Strand Length (nt)b Terminator sequence Adjacent genes Relative orientation Genome position Rfam ID Name
ncS03 + 58 yes BCAL0197 BCAL0198 → → ← 221314..221371 RF02278 Toxic small RNA
ncS05 - 67 yes BCAL0436 BCAL0437 ← ← → Complement (479440..479506) RF02278 Toxic small RNA
ncS17 + 200 yes BCAL2667 BCAL2668 → → → 2935785..2935984 RF00013 6S RNA
ncS23 + 81 yes BCAL2965 BCAL2965a → → → 3246834..3246914 RF01394 isrK
ncS24 + 90 no BCAL2965 BCAL2965a → → → 3246937..3247026 RF01695 C4a
ncS27 - 92 yes BCAL3348a BCAL3349 → ← → Complement (3666557..3666648) RF02278 Toxic small RNA
ncS62 + 57 yes BCAM1871 BCAM1872 → → ← 2089713..2089769 RF02278 Toxic small RNA
ncR1 + 119 no BCAL0144 BCAL0145 → → → 168973..169091 RF01057 SAH riboswitch
ncR2 + 118 no BCAL1514 BCAL1515 → → → 1676458..1676575 RF01070 SucA RNA motif
  1. aC4 forms one transcriptional unit with isrK
  2. bLength of non-coding RNAs is inferred from dRNA-Seq data and terminator structures (when present) and is not yet experimentally confirmed