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Table 1 3′ UTR encoded sRNAs

From: Discovery and profiling of small RNAs responsive to stress conditions in the plant pathogen Pectobacterium atrosepticum

   sRNA RPKMs Expression Predicted sRNA promoter and start site Transcription Factor
sRNA name Parent mRNA Start end length sRNA mRNA (based on RPKMs) promoters −35 −10 TSS binding site
fwd_4 rbsB 14355 14537 183 596.8 102.8 Independent 1 14317 14342 14357 rpoD17, cynR, rpoD15, rpoD16, phoB
fwd_6 polA 28634 28755 122 549.8 110.5 Independent 1 28656 28676 28691 cytR, arcA, crp, rpoD15, rpoD17
fwd_15 ECA0044 55039 55291 253 66.8 27.4 Independent 1 55009 55029 55044 rpoD17, fis, rpoD15, rpoD16, phoB
fwd_19 expI 126355 126501 147 338.5 588.1 Co-expression 1 126418 126435 126450 metR, rpoD16
reg_seq13 aldA 139913 140154 242 136.8 30.4 Independent 1 140046 140063 140078  
reg_seq27 ECA0332 380584 380826 243 1660.5 389.3 Independent 1 380610 380631 380646 metJ
reg_seq31 ECA0449 515673 515910 238 363.3 528.7 Co-expression 1 515790 515813 515828 glpR, ihf, argR2, nagC, argR2, fnr, fis
reg_seq43 mdH 758603 758857 255 1759.1 1895.7 Co-expression 2 758751 758770 758789 glpR, fis, arcA, purR
          758444 758464 758479  
reg_seq142 ECA2516 2832294 2832530 237 514.2 77.5 Independent 1 2832185 2832205 2832220 purr, rpoD16
fwd_rfam4 rpiL 255260 255321 62 775.5 1856.1 Independent      lrp, hns
comp_seq5 glnA 34992 35234 243 858.8 1209.3 Co-expression 1 35262 35241 35226 rpoD15, rpoD16, phoB
comp_seq11 slmA 164026 164334 309 196.4 454.0 Independent 1 164395 164375 164360 arcA, rpoD17, rpoD15, rpoD16, phoB
comp_seq130 ECA2950 3295111 3295347 237 197.9 222.9 Co-expression 2 3295196 3295176 3295161 rpoD16, argR, arcA, ihf
          3295506 3295485 3295470  
rev_rfam22 glpC 4651380 4651485 109 348.2 40.8 Independent 1 4651583 4651562 4651547 Ada, rpoE, tyrR, fur, fur
dapZ ECA3872 (dapB) 4332178 4332288 111 20.9 110.8 Independent 1 4332302 4332284 4332269 Ihf, argR2, rpoD16, argR,, fis, crp