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Table 1 The 16 most abundant intergenic candidate sRNAs with predicted sigma 70 promoters

From: Deep sequencing reveals as-yet-undiscovered small RNAs in Escherichia coli

sRNA name Size (nt) Mean no. of
Reads*a
Northern blot band size*b(nt)   Ref.*c
    Total LM  
ECS001 89 872.9 ~1130 - -
ECS002 51 360.4 ~300 - [16]
ECS004 78 306.0 - - [11]
ECS005 62 197.9 ~190 - -
ECS006 89 83.3 - - -
ECS007 50 79.5 ~90 ~90 -
ECS009 186 52.0 ~190, ~155 ~155 [9, 13, 17]
ECS0010 74 47.5 ~75 ~75 [9]
ECS0014 107 31.0 - - -
ECS0016 73 24.8 - - -
ECS0019 66 19.6 - - -
ECS0020 179 18.8 smear ~115 -
ECS0022 79 17.1 ~80 ~80 [16]
ECS0023 87 16.7 ~840 - -
ECS0024 74 14.9 - - -
ECS0025 60 14.5 ~65 ~65 -
  1. Sixteen intergenic candidate sRNAs were extracted from classes A and B (Figure 1B) for northern blot analysis. *a The average number of deep sequencing reads mapped to each candidate sRNA: total number of reads divided by the length of the candidate sRNA, to compare the relative expression levels. *b Major signal sizes detected by northern blotting (Figure 2). Total, total RNA; LM, low-molecular-weight RNA. Bold letters indicate that each signal size was approximately the same as the predicted length of the sRNA based on the deep sequencing analysis. Hyphens indicate that no signal was detected in the northern blot analysis. *c References to predicted sRNAs in previous studies located around each candidate sRNA. The details of the candidate sRNAs are given in Additional File 4.