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User:jreinken/Cuckoo RNA

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cuckoo RNAs are a family of small non-coding RNAs, which is conserved among several alphaproteobacterial families.[1] cuckoo RNAs consist of a modular RNA secondary structure with a variable number of stem-loops of similar size that carry the conserved sequence motif CCUCCUCCC. Parts of the motif resemble an anti Shine-Dalgarno sequence and it is therefore hypothesised that cuckoo RNAs repress target mRNAs by occluding their ribosome binding site. To date, three structural variants are known that exhibit two to four stem-loops. The first cuckoo RNAs were predicted in Sinorhizobium meliloti.[2] Subsequent studies provided experimental evidence for additional cuckoo RNAs in S. meliloti,[3][4][5] Rhizobium etli,[6] Agrobacterium tumefaciens,[7] and Rhodobacter sphaeroides.[8][9][10] Further comparative studies especially those focusing on one of the three structural variants extended the number of known cuckoo RNAs to more than 300.[11][12][13] While cuckoo RNAs with two stem loops are prevalent in rhodobacterial species, three and four stem-loop cuckoo RNAs are more common in the Rhizobiales.Because of this structural variation, combined with lack of sequence conservation in the helices, the family was not built with a covariance model. It was built with the alternative method of thermodynamic matchers,[1] using the Bellman'S GAP system[14] and software components from the RNAshapes repository.[15]

cuckoo RNA (two stem-loops)
Predicted secondary structure[16] and sequence conservation of cuckoo RNAs consisting of two stem loops
Identifiers
Symbolcuckoo HP2
Other data
RNA typeGene; sRNA
Domain(s)Alphaproteobacteria; Bacteria
PDB structuresPDBe
cuckoo RNA (three stem-loops)
Predicted secondary structure[16] and sequence conservation of cuckoo RNAs consisting of three stem loops
Identifiers
Symbolcuckoo HP3
Other data
RNA typeGene; sRNA
Domain(s)Alphaproteobacteria; Bacteria
PDB structuresPDBe
cuckoo RNA (four stem-loops)
Predicted secondary structure[16] and sequence conservation of cuckoo RNAs consisting of four stem loops
Identifiers
Symbolcuckoo HP4
Other data
RNA typeGene; sRNA
Domain(s)Alphaproteobacteria; Bacteria
PDB structuresPDBe


Structural alignment of cuckoo RNAs with two stem-loops constructed by using mlocarna.[17] The color scheme follows the Vienna RNA conservation coloring scheme. Colors indicate the number of nucleotide combinations in the alignment that are involved in forming predicted base-pairs (red = 1, yellow = 2, green = 3, cyan = 4, blue = 5, purple = 6).


Structural alignment of cuckoo RNAs with three stem-loops constructed by using mlocarna.[17] The color scheme follows the Vienna RNA conservation coloring scheme. Colors indicate the number of nucleotide combinations in the alignment that are involved in forming predicted base-pairs (red = 1, yellow = 2, green = 3, cyan = 4, blue = 5, purple = 6).


Structural alignment of cuckoo RNAs with four stem-loops constructed by using mlocarna.[17] The color scheme follows the Vienna RNA conservation coloring scheme. Colors indicate the number of nucleotide combinations in the alignment that are involved in forming predicted base-pairs (red = 1, yellow = 2, green = 3, cyan = 4, blue = 5, purple = 6).


Table 1: cuckoo RNA homologs
organism accession strand start stop length nb stem-loops
1 Brucella abortus A13334 NC_016777 - 653262 653336 75 2
2 Brucella abortus S19 NC_010740 - 502220 502294 75 2
3 Brucella abortus bv. 1 str. 9-941 NC_006933 - 503016 503090 75 2
4 Brucella canis ATCC 23365 NC_010104 - 448045 448112 68 2
5 Brucella canis HSK A52141 NC_016796 + 347616 347683 68 2
6 Brucella melitensis ATCC 23457 NC_012442 + 693158 693235 78 2
7 Brucella melitensis M28 NC_017245 + 693239 693316 78 2
8 Brucella melitensis M5-90 NC_017247 + 693422 693500 79 2
9 Brucella melitensis NI NC_017283 + 684915 684991 77 2
10 Brucella melitensis biovar Abortus 2308 NC_007624 - 503004 503078 75 2
11 Brucella melitensis biovar Abortus 2308 NC_007624 + 766870 766937 68 2
12 Brucella melitensis bv. 1 str. 16M NC_003318 - 583662 583740 79 2
13 Brucella melitensis bv. 1 str. 16M NC_003318 + 840862 840929 68 2
14 Brucella microti CCM 4915 NC_013118 - 449438 449505 68 2
15 Brucella microti CCM 4915 NC_013118 + 714994 715072 79 2
16 Brucella ovis ATCC 25840 NC_009504 + 715283 715365 83 2
17 Brucella pinnipedialis B2/94 NC_015858 + 769774 769858 85 2
18 Brucella suis 1330 NC_004311 + 714053 714140 88 2
19 Brucella suis ATCC 23445 NC_010167 + 701948 702026 79 2
20 Brucella suis VBI22 NC_016775 + 714103 714190 88 2
21 Chelativorans sp. BNC1 NC_008254 + 215078 215147 70 2
22 Chelativorans sp. BNC1 NC_008254 + 247442 247513 72 2
23 Dinoroseobacter shibae DFL 12 NC_009952 + 2630143 2630214 72 2
24 Jannaschia sp. CCS1 NC_007802 + 2789969 2790040 72 2
25 Jannaschia sp. CCS1 NC_007802 + 2790047 2790121 75 2
26 Jannaschia sp. CCS1 NC_007802 + 2790129 2790206 78 2
27 Loktanella vestfoldensis DSM 16212 ARNL01000047 + 167285 167363 79 2
28 Loktanella vestfoldensis DSM 16212 ARNL01000047 + 167366 167457 92 2
29 Loktanella vestfoldensis SKA53 AAMS01000006 + 20806 20885 80 2
30 Loktanella vestfoldensis SKA53 AAMS01000006 + 20888 20979 92 2
31 Oceanicola batsensis HTCC2597 AAMO01000006 - 253329 253403 75 2
32 Oceanicola batsensis HTCC2597 AAMO01000015 + 75594 75676 83 2
33 Oceanicola granulosus HTCC2516 AAOT01000003 + 159000 159071 72 2
34 Oceanicola granulosus HTCC2516 AAOT01000003 + 159079 159178 100 2
35 Oceanicola granulosus HTCC2516 AAOT01000003 + 159179 159271 93 2
36 Oceanicola granulosus HTCC2516 AAOT01000003 + 159276 159366 91 2
37 Octadecabacter antarcticus 307 NC_020911 - 1186564 1186643 80 2
38 Octadecabacter antarcticus 307 NC_020911 + 1586963 1587043 81 2
39 Octadecabacter arcticus 238 NC_020908 + 725520 725600 81 2
40 Octadecabacter arcticus 238 NC_020908 - 805823 805900 78 2
41 Octadecabacter arcticus 238 NC_020908 + 2229885 2229964 80 2
42 Paracoccus denitrificans PD1222 NC_008686 - 551382 551460 79 2
43 Paracoccus denitrificans PD1222 NC_008686 - 551461 551537 77 2
44 Paracoccus denitrificans PD1222 NC_008686 - 551548 551620 73 2
45 Paracoccus denitrificans PD1222 NC_008686 - 551632 551708 77 2
46 Parvibaculum lavamentivorans DS-1 NC_009719 - 2345729 2345812 84 2
47 Phaeobacter gallaeciensis 2.10 NC_018286 - 1028576 1028659 84 2
48 Phaeobacter gallaeciensis 2.10 NC_018286 - 1028692 1028768 77 2
49 Phaeobacter gallaeciensis DSM 17395 = CIP 105210 NC_018290 - 969366 969450 85 2
50 Phaeobacter gallaeciensis DSM 17395 = CIP 105210 NC_018290 - 969483 969559 77 2
51 Rhizobium etli CIAT 652 NC_010997 + 28126 28206 81 2
52 Rhizobium leguminosarum bv. trifolii WSM2304 NC_011369 + 2611417 2611512 96 2
53 Rhodobacter capsulatus SB 1003 NC_014034 + 2557456 2557534 79 2
54 Rhodobacter capsulatus SB 1003 NC_014034 + 2557567 2557644 78 2
55 Rhodobacter capsulatus SB 1003 NC_014034 + 2557654 2557718 65 2
56 Rhodobacter capsulatus SB 1003 NC_014034 + 2557722 2557797 76 2
57 Rhodobacter sphaeroides 2.4.1 NC_007493 - 691712 691787 76 2
58 Rhodobacter sphaeroides 2.4.1 NC_007493 - 691826 691901 76 2
59 Rhodobacter sphaeroides 2.4.1 NC_007493 - 691940 692015 76 2
60 Rhodobacter sphaeroides 2.4.1 NC_007493 - 692055 692130 76 2
61 Rhodobacter sphaeroides 2.4.1 NC_007493 - 692169 692245 77 2
62 Rhodobacter sphaeroides 2.4.1 NC_007493 - 692284 692355 72 2
63 Rhodobacter sphaeroides 2.4.1 NC_007493 - 692386 692458 73 2
64 Rhodobacter sphaeroides ATCC 17025 NC_009428 - 686801 686877 77 2
65 Rhodobacter sphaeroides ATCC 17025 NC_009428 - 686914 686990 77 2
66 Rhodobacter sphaeroides ATCC 17025 NC_009428 - 687030 687103 74 2
67 Rhodobacter sphaeroides ATCC 17025 NC_009428 - 687134 687206 73 2
68 Rhodobacter sphaeroides ATCC 17029 NC_009049 - 775209 775284 76 2
69 Rhodobacter sphaeroides ATCC 17029 NC_009049 - 775322 775397 76 2
70 Rhodobacter sphaeroides ATCC 17029 NC_009049 - 775436 775511 76 2
71 Rhodobacter sphaeroides ATCC 17029 NC_009049 - 775550 775625 76 2
72 Rhodobacter sphaeroides ATCC 17029 NC_009049 - 775664 775739 76 2
73 Rhodobacter sphaeroides ATCC 17029 NC_009049 - 775778 775853 76 2
74 Rhodobacter sphaeroides ATCC 17029 NC_009049 - 775892 775968 77 2
75 Rhodobacter sphaeroides ATCC 17029 NC_009049 - 776007 776078 72 2
76 Rhodobacter sphaeroides ATCC 17029 NC_009049 - 776109 776181 73 2
77 Rhodobacter sphaeroides KD131 NC_011963 - 388542 388617 76 2
78 Rhodobacter sphaeroides KD131 NC_011963 - 388655 388733 79 2
79 Rhodobacter sphaeroides KD131 NC_011963 - 388773 388848 76 2
80 Rhodobacter sphaeroides KD131 NC_011963 - 388886 388961 76 2
81 Rhodobacter sphaeroides KD131 NC_011963 - 389000 389076 77 2
82 Rhodobacter sphaeroides KD131 NC_011963 - 389115 389186 72 2
83 Rhodobacter sphaeroides KD131 NC_011963 - 389217 389289 73 2
84 Roseobacter denitrificans OCh 114 NC_008209 + 3236828 3236905 78 2
85 Roseobacter denitrificans OCh 114 NC_008209 + 3236958 3237038 81 2
86 Roseobacter litoralis Och 149 NC_015730 + 2651702 2651779 78 2
87 Roseobacter litoralis Och 149 NC_015730 + 2651849 2651925 77 2
88 Roseovarius nubinhibens ISM AALY01000001 - 1448571 1448659 89 2
89 Roseovarius nubinhibens ISM AALY01000001 - 1795550 1795645 96 2
90 Roseovarius sp. 217 AAMV01000014 - 60809 60892 84 2
91 Roseovarius sp. 217 AAMV01000014 - 60923 61000 78 2
92 Ruegeria pomeroyi DSS-3 NC_003911 - 1229325 1229402 78 2
93 Ruegeria pomeroyi DSS-3 NC_003911 - 1229435 1229515 81 2
94 Ruegeria pomeroyi DSS-3 NC_003911 - 1229541 1229615 75 2
95 Ruegeria sp. TM1040 NC_008044 + 2128236 2128310 75 2
96 Ruegeria sp. TM1040 NC_008044 + 2128342 2128421 80 2
97 Sagittula stellata E-37 AAYA01000003 - 288749 288824 76 2
98 Sagittula stellata E-37 AAYA01000003 - 288853 288928 76 2
99 Sagittula stellata E-37 AAYA01000003 - 288952 289032 81 2
100 Sinorhizobium medicae WSM419 NC_009636 - 1974715 1974785 71 2
101 Sulfitobacter sp. EE-36 AALV01000002 + 574043 574121 79 2
102 Sulfitobacter sp. NAS-14.1 AALZ01000003 + 477443 477521 79 2
103 Sulfitobacter sp. NAS-14.1 AALZ01000014 - 12834 12913 80 2
104 Phaeobacter gallaeciensis DSM 26640 NC_023137 + 2565404 2565480 77 2
105 Phaeobacter gallaeciensis DSM 26640 NC_023137 + 2565513 2565597 85 2
106 Agrobacterium tumefaciens str. C58 NC_003063 + 1230300 1230420 121 3
107 Agrobacterium radiobacter K84 NC_011985 + 597906 598019 114 3
108 Agrobacterium radiobacter K84 NC_011985 - 1693286 1693404 119 3
109 Agrobacterium radiobacter K84 NC_011985 - 3945513 3945635 123 3
110 Agrobacterium sp. H13-3 NC_015183 + 109376 109491 116 3
111 Agrobacterium sp. H13-3 NC_015508 + 1615158 1615278 121 3
112 Agrobacterium vitis S4 NC_011984 + 7323 7437 115 3
113 Agrobacterium vitis S4 NC_011989 + 115128 115250 123 3
114 Agrobacterium vitis S4 NC_011989 + 2043917 2044035 119 3
115 Brucella abortus A13334 NC_016777 + 917127 917244 118 3
116 Brucella abortus A13334 NC_016795 - 2057998 2058103 106 3
117 Brucella abortus S19 NC_010740 + 766085 766202 118 3
118 Brucella abortus S19 NC_010742 + 358314 358419 106 3
119 Brucella abortus bv. 1 str. 9-941 NC_006932 + 359929 360034 106 3
120 Brucella canis ATCC 23365 NC_010103 + 338025 338130 106 3
121 Brucella canis HSK A52141 NC_016778 - 716263 716368 106 3
122 Brucella melitensis ATCC 23457 NC_012441 + 358980 359085 106 3
123 Brucella melitensis M28 NC_017244 + 358975 359080 106 3
124 Brucella melitensis M5-90 NC_017246 + 359228 359333 106 3
125 Brucella melitensis NI NC_017248 + 359170 359275 106 3
126 Brucella melitensis biovar Abortus 2308 NC_007618 + 356297 356402 106 3
127 Brucella melitensis bv. 1 str. 16M NC_003317 - 1644164 1644269 106 3
128 Brucella microti CCM 4915 NC_013119 + 339703 339808 106 3
129 Brucella ovis ATCC 25840 NC_009505 + 359686 359791 106 3
130 Brucella pinnipedialis B2/94 NC_015857 + 359797 359902 106 3
131 Brucella pinnipedialis B2/94 NC_015858 - 432926 433043 118 3
132 Brucella suis 1330 NC_004311 - 448112 448229 118 3
133 Brucella suis 1330 NC_004310 + 338022 338127 106 3
134 Brucella suis ATCC 23445 NC_010167 - 449214 449331 118 3
135 Brucella suis ATCC 23445 NC_010169 + 355561 355666 106 3
136 Brucella suis VBI22 NC_016775 - 448084 448201 118 3
137 Brucella suis VBI22 NC_016797 + 337983 338088 106 3
138 Chelativorans sp. BNC1 NC_008242 - 32194 32312 119 3
139 Chelativorans sp. BNC1 NC_008242 - 135271 135381 111 3
140 Chelativorans sp. BNC1 NC_008254 + 1916700 1916818 119 3
141 Chelativorans sp. BNC1 NC_008254 - 3977087 3977203 117 3
142 Ketogulonicigenium vulgare WSH-001 NC_017384 + 1585028 1585148 121 3
143 Ketogulonicigenium vulgare Y25 NC_014625 - 363561 363681 121 3
144 Loktanella vestfoldensis DSM 16212 ARNL01000047 + 167460 167590 131 3
145 Loktanella vestfoldensis SKA53 AAMS01000006 + 20982 21115 134 3
146 Mesorhizobium australicum WSM2073 NC_019973 + 2514219 2514328 110 3
147 Mesorhizobium australicum WSM2073 NC_019973 - 3842524 3842639 116 3
148 Mesorhizobium australicum WSM2073 NC_019973 - 3842695 3842817 123 3
149 Mesorhizobium australicum WSM2073 NC_019973 - 3842878 3842995 118 3
150 Mesorhizobium australicum WSM2073 NC_019973 + 5250476 5250594 119 3
151 Mesorhizobium ciceri biovar biserrulae WSM1271 NC_014918 - 241411 241528 118 3
152 Mesorhizobium ciceri biovar biserrulae WSM1271 NC_014923 + 2545677 2545786 110 3
153 Mesorhizobium ciceri biovar biserrulae WSM1271 NC_014923 - 3674844 3674959 116 3
154 Mesorhizobium ciceri biovar biserrulae WSM1271 NC_014923 - 3675022 3675138 117 3
155 Mesorhizobium ciceri biovar biserrulae WSM1271 NC_014923 - 3675192 3675313 122 3
156 Mesorhizobium ciceri biovar biserrulae WSM1271 NC_014923 + 5265891 5266010 120 3
157 Mesorhizobium loti MAFF303099 NC_002678 + 890586 890708 123 3
158 Mesorhizobium loti MAFF303099 NC_002678 + 890764 890886 123 3
159 Mesorhizobium loti MAFF303099 NC_002678 + 890945 891060 116 3
160 Mesorhizobium loti MAFF303099 NC_002678 - 4952227 4952339 113 3
161 Mesorhizobium loti MAFF303099 NC_002678 + 5350765 5350884 120 3
162 Mesorhizobium loti MAFF303099 NC_002678 - 6092422 6092540 119 3
163 Mesorhizobium opportunistum WSM2075 NC_015675 + 2663741 2663850 110 3
164 Mesorhizobium opportunistum WSM2075 NC_015675 - 4112140 4112256 117 3
165 Mesorhizobium opportunistum WSM2075 NC_015675 - 4112319 4112435 117 3
166 Mesorhizobium opportunistum WSM2075 NC_015675 - 4112500 4112616 117 3
167 Mesorhizobium opportunistum WSM2075 NC_015675 + 5830416 5830540 125 3
168 Oceanicola granulosus HTCC2516 AAOT01000003 + 159369 159502 134 3
169 Ochrobactrum anthropi ATCC 49188 NC_009667 + 448505 448616 112 3
170 Ochrobactrum anthropi ATCC 49188 NC_009668 - 273977 274099 123 3
171 Ochrobactrum anthropi ATCC 49188 NC_009668 + 274692 274808 117 3
172 Ochrobactrum anthropi ATCC 49188 NC_009668 + 1275653 1275770 118 3
173 Octadecabacter arcticus 238 NC_020908 - 805678 805816 139 3
174 Pelagibacterium halotolerans B2 NC_016078 + 2112639 2112774 136 3
175 Pelagibacterium halotolerans B2 NC_016078 + 2112938 2113067 130 3
176 Polymorphum gilvum SL003B-26A1 NC_015259 - 2331457 2331575 119 3
177 Rhizobium etli CFN 42 NC_007761 + 462572 462689 118 3
178 Rhizobium etli CFN 42 NC_007761 - 1926237 1926353 117 3
179 Rhizobium etli CFN 42 NC_007761 - 4314389 4314500 112 3
180 Rhizobium etli CFN 42 NC_007766 + 22825 22932 108 3
181 Rhizobium etli CIAT 652 NC_010994 + 513999 514116 118 3
182 Rhizobium etli CIAT 652 NC_010994 - 1912478 1912592 115 3
183 Rhizobium etli CIAT 652 NC_010994 - 4444891 4445011 121 3
184 Rhizobium etli bv. mimosae str. Mim1 NC_021905 + 460364 460481 118 3
185 Rhizobium etli bv. mimosae str. Mim1 NC_021905 - 1884349 1884464 116 3
186 Rhizobium etli bv. mimosae str. Mim1 NC_021905 - 4217281 4217392 112 3
187 Rhizobium etli bv. mimosae str. Mim1 NC_021911 + 23172 23285 114 3
188 Rhizobium leguminosarum bv. trifolii WSM1325 NC_012848 + 112606 112722 117 3
189 Rhizobium leguminosarum bv. trifolii WSM1325 NC_012850 + 107069 107186 118 3
190 Rhizobium leguminosarum bv. trifolii WSM1325 NC_012850 - 1697043 1697151 109 3
191 Rhizobium leguminosarum bv. trifolii WSM1325 NC_012850 - 4296637 4296748 112 3
192 Rhizobium leguminosarum bv. trifolii WSM2304 NC_011368 - 306341 306452 112 3
193 Rhizobium leguminosarum bv. trifolii WSM2304 NC_011369 + 98056 98173 118 3
194 Rhizobium leguminosarum bv. trifolii WSM2304 NC_011369 - 1534501 1534616 116 3
195 Rhizobium leguminosarum bv. trifolii WSM2304 NC_011369 - 4019331 4019445 115 3
196 Rhizobium leguminosarum bv. viciae 3841 NC_008378 + 407204 407312 109 3
197 Rhizobium leguminosarum bv. viciae 3841 NC_008380 + 512664 512781 118 3
198 Rhizobium leguminosarum bv. viciae 3841 NC_008380 - 2174961 2175069 109 3
199 Rhizobium leguminosarum bv. viciae 3841 NC_008380 - 4988043 4988157 115 3
200 Rhizobium tropici CIAT 899 NC_020059 + 542312 542433 122 3
201 Rhizobium tropici CIAT 899 NC_020059 - 1631584 1631703 120 3
202 Rhizobium tropici CIAT 899 NC_020059 - 3775245 3775367 123 3
203 Sagittula stellata E-37 AAYA01000003 - 288595 288722 128 3
204 Sinorhizobium fredii HH103 NC_016812 - 1359348 1359467 120 3
205 Sinorhizobium fredii HH103 NC_016812 - 1359641 1359757 117 3
206 Sinorhizobium fredii HH103 NC_016812 + 4014538 4014654 117 3
207 Sinorhizobium fredii HH103 NC_016815 - 233468 233581 114 3
208 Sinorhizobium fredii HH103 NC_018299 + 158094 158203 110 3
209 Sinorhizobium fredii HH103 NT_187148 + 158094 158203 110 3
210 Sinorhizobium fredii NGR234 NC_012586 + 2205316 2205429 114 3
211 Sinorhizobium fredii NGR234 NC_012587 - 1434171 1434291 121 3
212 Sinorhizobium fredii NGR234 NC_012587 - 1434465 1434581 117 3
213 Sinorhizobium fredii NGR234 NC_012587 + 3720582 3720698 117 3
214 Sinorhizobium fredii USDA 257 NC_018000 + 1713249 1713362 114 3
215 Sinorhizobium fredii USDA 257 NC_018000 - 3752633 3752757 125 3
216 Sinorhizobium fredii USDA 257 NC_018000 - 3752930 3753043 114 3
217 Sinorhizobium fredii USDA 257 NC_018000 + 5733804 5733912 109 3
218 Sinorhizobium fredii USDA 257 NC_018000 + 6267166 6267283 118 3
219 Sinorhizobium fredii USDA 257 NC_018191 + 159232 159341 110 3
220 Sinorhizobium medicae WSM419 NC_009620 - 679042 679158 117 3
221 Sinorhizobium medicae WSM419 NC_009636 - 1258034 1258158 125 3
222 Sinorhizobium medicae WSM419 NC_009636 - 1258315 1258426 112 3
223 Sinorhizobium medicae WSM419 NC_009636 - 3590302 3590414 113 3
224 Sinorhizobium meliloti 1021 NC_003037 + 1220693 1220806 114 3
225 Sinorhizobium meliloti 1021 NC_003047 - 206865 206977 113 3
226 Sinorhizobium meliloti 1021 NC_003047 - 1667488 1667611 124 3
227 Sinorhizobium meliloti 1021 NC_003047 - 1667771 1667886 116 3
228 Sinorhizobium meliloti 1021 NC_003078 + 1605828 1605944 117 3
229 Sinorhizobium meliloti 2011 NC_020527 + 1219031 1219144 114 3
230 Sinorhizobium meliloti 2011 NC_020528 - 206866 206978 113 3
231 Sinorhizobium meliloti 2011 NC_020528 - 1667197 1667320 124 3
232 Sinorhizobium meliloti 2011 NC_020528 - 1667480 1667595 116 3
233 Sinorhizobium meliloti 2011 NC_020560 + 1605843 1605959 117 3
234 Sinorhizobium meliloti AK83 NC_015590 - 1369797 1369920 124 3
235 Sinorhizobium meliloti AK83 NC_015590 - 1370080 1370195 116 3
236 Sinorhizobium meliloti AK83 NC_015590 - 3626930 3627042 113 3
237 Sinorhizobium meliloti AK83 NC_015596 - 574044 574160 117 3
238 Sinorhizobium meliloti AK83 NC_015597 + 172172 172288 117 3
239 Sinorhizobium meliloti BL225C NC_017322 - 1231897 1232020 124 3
240 Sinorhizobium meliloti BL225C NC_017322 - 1232180 1232295 116 3
241 Sinorhizobium meliloti BL225C NC_017322 - 3479601 3479713 113 3
242 Sinorhizobium meliloti BL225C NC_017323 - 1376421 1376537 117 3
243 Sinorhizobium meliloti GR4 NC_019845 - 201602 201714 113 3
244 Sinorhizobium meliloti GR4 NC_019845 - 1637016 1637139 124 3
245 Sinorhizobium meliloti GR4 NC_019845 - 1637299 1637414 116 3
246 Sinorhizobium meliloti GR4 NC_019849 - 141338 141454 117 3
247 Sinorhizobium meliloti Rm41 NC_018683 - 532712 532828 117 3
248 Sinorhizobium meliloti Rm41 NC_018700 - 1308437 1308560 124 3
249 Sinorhizobium meliloti Rm41 NC_018700 - 1308720 1308835 116 3
250 Sinorhizobium meliloti Rm41 NC_018700 - 3485604 3485716 113 3
251 Sinorhizobium meliloti Rm41 NC_018701 - 135189 135305 117 3
252 Sinorhizobium meliloti SM11 NC_017325 + 2001062 2001177 116 3
253 Sinorhizobium meliloti SM11 NC_017325 + 2001337 2001460 124 3
254 Sinorhizobium meliloti SM11 NC_017325 - 3713437 3713549 113 3
255 Sinorhizobium meliloti SM11 NC_017326 - 141142 141258 117 3
256 Agrobacterium tumefaciens str. C58 NC_003062 + 109477 109645 169 4
257 Agrobacterium tumefaciens str. C58 NC_003063 + 1831446 1831604 159 4
258 Agrobacterium radiobacter K84 NC_011983 + 957654 957810 157 4
259 Agrobacterium radiobacter K84 NC_011983 - 1921118 1921278 161 4
260 Agrobacterium radiobacter K84 NC_011987 - 138502 138658 157 4
261 Agrobacterium sp. H13-3 NC_015508 - 164001 164157 157 4
262 Agrobacterium sp. H13-3 NC_015508 - 244664 244817 154 4
263 Agrobacterium vitis S4 NC_011988 - 598435 598589 155 4
264 Agrobacterium vitis S4 NC_011988 + 901000 901158 159 4
265 Agrobacterium vitis S4 NC_011989 - 2793811 2793967 157 4
266 Brucella abortus A13334 NC_016795 + 1527400 1527550 151 4
267 Brucella abortus S19 NC_010742 - 888878 889028 151 4
268 Brucella abortus bv. 1 str. 9-941 NC_006932 - 890577 890727 151 4
269 Brucella canis ATCC 23365 NC_010103 - 867218 867368 151 4
270 Brucella canis HSK A52141 NC_016778 + 185975 186125 151 4
271 Brucella melitensis ATCC 23457 NC_012441 - 890344 890494 151 4
272 Brucella melitensis M28 NC_017244 - 890289 890439 151 4
273 Brucella melitensis M5-90 NC_017246 - 890603 890753 151 4
274 Brucella melitensis NI NC_017248 - 886872 887022 151 4
275 Brucella melitensis biovar Abortus 2308 NC_007618 - 886855 887005 151 4
276 Brucella melitensis bv. 1 str. 16M NC_003317 + 1116628 1116778 151 4
277 Brucella microti CCM 4915 NC_013119 - 873050 873200 151 4
278 Brucella ovis ATCC 25840 NC_009505 - 895750 895898 149 4
279 Brucella pinnipedialis B2/94 NC_015857 - 897286 897436 151 4
280 Brucella suis 1330 NC_004310 - 868834 868984 151 4
281 Brucella suis ATCC 23445 NC_010169 - 888714 888864 151 4
282 Brucella suis VBI22 NC_016797 - 868801 868951 151 4
283 Oceanicola batsensis HTCC2597 AAMO01000006 - 253121 253287 167 4
284 Ochrobactrum anthropi ATCC 49188 NC_009667 + 2453942 2454091 150 4
285 Octadecabacter antarcticus 307 NC_020911 - 1086719 1086896 178 4
286 Octadecabacter antarcticus 307 NC_020911 - 1955581 1955758 178 4
287 Octadecabacter antarcticus 307 NC_020911 - 1992343 1992520 178 4
288 Octadecabacter antarcticus 307 NC_020911 + 3698830 3699006 177 4
289 Octadecabacter arcticus 238 NC_020908 - 670324 670504 181 4
290 Octadecabacter arcticus 238 NC_020908 + 2787008 2787181 174 4
291 Octadecabacter arcticus 238 NC_020908 + 3179240 3179417 178 4
292 Paracoccus aminophilus JCM 7686 NC_022041 + 2655475 2655630 156 4
293 Paracoccus aminophilus JCM 7686 NC_022041 + 2655655 2655805 151 4
294 Paracoccus denitrificans PD1222 NC_008686 - 551203 551352 150 4
295 Polymorphum gilvum SL003B-26A1 NC_015259 - 2332074 2332228 155 4
296 Pseudovibrio sp. FO-BEG1 NC_016642 + 3461369 3461532 164 4
297 Rhizobium etli CFN 42 NC_004041 + 77637 77794 158 4
298 Rhizobium etli CFN 42 NC_007765 - 443012 443161 150 4
299 Rhizobium etli CIAT 652 NC_010994 + 1173479 1173639 161 4
300 Rhizobium etli CIAT 652 NC_010996 + 112261 112418 158 4
301 Rhizobium etli CIAT 652 NC_010998 - 345903 346054 152 4
302 Rhizobium etli bv. mimosae str. Mim1 NC_021908 - 449725 449873 149 4
303 Rhizobium leguminosarum bv. trifolii WSM1325 NC_012848 + 265906 266069 164 4
304 Rhizobium leguminosarum bv. trifolii WSM1325 NC_012852 + 119283 119433 151 4
305 Rhizobium leguminosarum bv. trifolii WSM1325 NC_012854 - 2286 2441 156 4
306 Rhizobium leguminosarum bv. trifolii WSM1325 NC_012858 + 28612 28768 157 4
307 Rhizobium leguminosarum bv. trifolii WSM2304 NC_011366 + 50780 50933 154 4
308 Rhizobium leguminosarum bv. trifolii WSM2304 NC_011368 + 607606 607759 154 4
309 Rhizobium leguminosarum bv. viciae 3841 NC_008384 - 574470 574626 157 4
310 Rhizobium tropici CIAT 899 NC_020062 + 1038279 1038431 153 4
311 Sinorhizobium medicae WSM419 NC_009621 + 316270 316428 159 4
312 Sinorhizobium medicae WSM419 NC_009621 + 338831 338988 158 4
313 Sinorhizobium meliloti 1021 NC_003037 - 1328176 1328333 158 4
314 Sinorhizobium meliloti 2011 NC_020527 - 1326513 1326670 158 4
315 Sinorhizobium meliloti AK83 NC_015591 + 252033 252190 158 4
316 Sinorhizobium meliloti BL225C NC_017324 - 293093 293250 158 4
317 Sinorhizobium meliloti GR4 NC_019848 + 24154 24311 158 4
318 Sinorhizobium meliloti Rm41 NC_018683 + 26268 26425 158 4
319 Sinorhizobium meliloti SM11 NC_017327 + 29162 29319 158 4
320 Sulfitobacter sp. EE-36 AALV01000002 + 574555 574727 173 4
321 Sulfitobacter sp. NAS-14.1 AALZ01000003 + 477955 478127 173 4


References

[edit]
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Category:RNA

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