From: Identification of cyanobacterial non-coding RNAs by comparative genome analysis
CLID | Sequence number | Strain | Alignment length | Z | Z rev | Exp | Comment | Reference | |||
---|---|---|---|---|---|---|---|---|---|---|---|
MED | SS1 | MIT | WH8 | ||||||||
194 | 3 | 3 | - | - | - | 201 | -6.28 | -12.94 | + | yfr2, yfr3, yfr4 | This paper |
5 | 3 | - | 1 | 1 | 1 | 345 | -7.58 | -10.18 | NT | rplCD operon leader, corresponds to Escherichia coli S10 r-operon | [61, 62] |
92 | 5 | 1 | 1 | 1 | 2 | 756 | -4.47 | -9.9 | NT | rrn operon leader | [63, 64] |
112 | 2 | 2 | - | - | - | 1129 | -8.15 | -9.15 | NT | Reciprocal coverage of 7.9%, artifact due to low-complexity sequences | - |
229 | 2 | - | - | 1 | 1 | 161 | -7.98 | -4.90 | NT | Hghly similar sequences, putative ncRNAs | This paper |
227 | 2 | - | - | 1 | 1 | 229 | -7.38 | -7.32 | NT | rplJ operon leader, corresponds to E. coli β r-operon | [65] |
84 | 1 | - | 1 | - | - | 122 | -6.27 | -5.54 | + | Yfr2 | This paper |
101 | 3 | - | 1 | 1 | 1 | 152 | -5.77 | -5.61 | NT | Putative Cobalamin riboswitch | [39, 66] |
226 | 2 | - | - | 1 | 1 | 142 | -5.29 | -5.28 | NT | Possible bi-directional terminator of the rplKAJL operon | Predicted by TransTerm [67] |
9 | 6 | - | 1 | 1 | 4 | 397 | -4.38 | -4.95 | NT | No conserved position, no significant BLASTN hit to MED4 | This paper |
51 | 2 | 1 | 1 | - | - | 146 | -0.84 | -4.92 | + | yfr7 | This paper |
53 | 9 | 2 | 2 | 1 | 4 | 697 | -3.26 | -4.59 | + | yfr6 in MED4 and SS120 and a subgroup of 5' UTR regions to annotated genes and putative unannotated genes in all four strains | This paper |
245 | 2 | - | - | 1 | 1 | 259 | -3.7 | -4.53 | - | rpoBC operon leader, corresponds to E. coli attenuator separating the rpl genes from rpoBC in the rplKAJLrpoBC gene cluster | [37, 68] |
217 | 1 | 1 | - | - | - | 153 | -1.63 | -4.28 | - | Located between genes for a two-component sensor histidine kinase and a conserved hypothetical protein | This paper |
87 | 2 | - | - | 1 | 1 | 336 | -4.24 | -3.64 | NT | Region upstream of the rbcLS cluster containing conserved promoter | [51] |
228 | 2 | - | - | 1 | 1 | 106 | -0.67 | -4.00 | NT | Rpl11 operon leader, corresponds to E. coli L11 r-operon | [69, 70] |
257 | 2 | - | - | 1 | 1 | 176 | -3.42 | -3.97 | + | Yfr1 | This paper |
2 | 3 | - | 1 | 1 | 1 | 197 | -3.93 | -2.94 | NT | Putative TPP riboswitch in front of thiC | [38] |