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S.No.
Riboswitch Location and Strand
Riboswitch class
Downstream gene location and Strand
Downstream gene name/gene product description
Locus_tag of downstream gene
Single gene/within operon (According to DOOR database)
Operon details (List of genes within operon and their Locus_tag)
Predicted Structure
1
185258-185492
(-)
cobalamin
184687-185185 (-)
TM1040_0168
TM1040_0168
Single gene
DOOR ID:
1811936
TM1040_0168
View Structure
2
211359-211407
(+)
SAM-SAH
211415-212597 (+)
TM1040_0193
S-adenosylmethionine synthase (AdoMet synthase) (MAT) (Methionine adenosyltransferase)
TM1040_0193
Operon
DOOR ID:
194594
TM1040_0191,
TM1040_0192,
TM1040_0193
View Structure
3
548161-548354
(-)
cobalamin
547838-548060 (-)
TM1040_0521
Ribonucleoside-diphosphate reductase class Ib glutaredoxin subunit
TM1040_0521
Operon
DOOR ID:
194660
TM1040_0518
(nrdF)
,
TM1040_0519,
TM1040_0520
(nrdI)
,
TM1040_0521
View Structure
4
2042675-2042753
(-)
sam-alpha
2041409-2042597 (-)
TM1040_1938
O-succinylhomoserine sulfhydrylase (OSH sulfhydrylase) (OSHS sulfhydrylase)
TM1040_1938
Single gene
DOOR ID:
1812699
TM1040_1938
View Structure
5
2156715-2156837
(+)
TPP
2156957-2158784 (+)
TM1040_2054
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
TM1040_2054
Single gene
DOOR ID:
1812775
TM1040_2054
View Structure
6
2318941-2319180
(+)
cobalamin
2319277-2319781 (+)
TM1040_2208
TM1040_2208
Operon
DOOR ID:
194983
TM1040_2208,
TM1040_2209
View Structure
7
2333297-2333511
(+)
cobalamin
2333649-2334423 (+)
TM1040_2222
Cobalt transporter subunit CbtA putative
TM1040_2222
Single gene
DOOR ID:
1812847
TM1040_2222
View Structure
8
2638185-2638319
(+)
FMN
2638409-2639303 (+)
TM1040_2496
TM1040_2496
Single gene
DOOR ID:
1812981
TM1040_2496
View Structure
9
2982627-2982731
(-)
TPP
2981593-2982574 (-)
tbpA
ABC transporter periplasmic binding protein thiB subfamily
TM1040_2818
Operon
DOOR ID:
195101
TM1040_2816,
TM1040_2817
(thiP)
,
TM1040_2818
(tbpA)
View Structure
10
3101368-3101583
(+)
cobalamin
3101670-3102390 (+)
TM1040_2933
TM1040_2933
Operon
DOOR ID:
195126
TM1040_2933,
TM1040_2934,
TM1040_2935,
TM1040_2936
View Structure
Genome:
Ruegeria sp. TM1040
(
NC_008044.1
);
Phylum:
Alphaproteobacteria
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TM1040 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"211359-211407";i:6;s:1:"+";i:7;s:7:"SAM-SAH";i:8;s:0:"";i:9;s:13:"211415-212597";i:10;s:1:"+";i:11;s:11:"TM1040_0193";i:12;s:87:"S-adenosylmethionine synthase (AdoMet synthase) (MAT) (Methionine adenosyltransferase)";i:13;s:11:"TM1040_0193";i:14;s:6:"Operon";i:15;s:6:"194594";i:16;s:35:"TM1040_0191;TM1040_0192;TM1040_0193";i:17;s:97:"one-carbon metabolic process [GO:0006730]; S-adenosylmethionine biosynthetic process [GO:0006556]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_008044.1";i:2;s:20:"Ruegeria sp. TM1040 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"548161-548354";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"547838-548060";i:10;s:1:"-";i:11;s:11:"TM1040_0521";i:12;s:67:"Ribonucleoside-diphosphate reductase class Ib glutaredoxin subunit ";i:13;s:11:"TM1040_0521";i:14;s:6:"Operon";i:15;s:6:"194660";i:16;s:59:"TM1040_0518(nrdF);TM1040_0519;TM1040_0520(nrdI);TM1040_0521";i:17;s:35:"cell redox homeostasis [GO:0045454]";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_008044.1";i:2;s:20:"Ruegeria sp. TM1040 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2042675-2042753";i:6;s:1:"-";i:7;s:9:"sam-alpha";i:8;s:0:"";i:9;s:15:"2041409-2042597";i:10;s:1:"-";i:11;s:11:"TM1040_1938";i:12;s:76:"O-succinylhomoserine sulfhydrylase (OSH sulfhydrylase) (OSHS sulfhydrylase) ";i:13;s:11:"TM1040_1938";i:14;s:11:"Single gene";i:15;s:7:"1812699";i:16;s:11:"TM1040_1938";i:17;s:104:"'de novo' L-methionine biosynthetic process [GO:0071266]; homocysteine biosynthetic process [GO:0071268]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_008044.1";i:2;s:20:"Ruegeria sp. TM1040 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2156715-2156837";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2156957-2158784";i:10;s:1:"+";i:11;s:11:"TM1040_2054";i:12;s:176:"Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)";i:13;s:11:"TM1040_2054";i:14;s:11:"Single gene";i:15;s:7:"1812775";i:16;s:11:"TM1040_2054";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_008044.1";i:2;s:20:"Ruegeria sp. TM1040 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2318941-2319180";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2319277-2319781";i:10;s:1:"+";i:11;s:11:"TM1040_2208";i:12;s:0:"";i:13;s:11:"TM1040_2208";i:14;s:6:"Operon";i:15;s:6:"194983";i:16;s:23:"TM1040_2208;TM1040_2209";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_008044.1";i:2;s:20:"Ruegeria sp. TM1040 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2333297-2333511";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2333649-2334423";i:10;s:1:"+";i:11;s:11:"TM1040_2222";i:12;s:40:"Cobalt transporter subunit CbtA putative";i:13;s:11:"TM1040_2222";i:14;s:11:"Single gene";i:15;s:7:"1812847";i:16;s:11:"TM1040_2222";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_008044.1";i:2;s:20:"Ruegeria sp. TM1040 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2638185-2638319";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"2638409-2639303";i:10;s:1:"+";i:11;s:11:"TM1040_2496";i:12;s:0:"";i:13;s:11:"TM1040_2496";i:14;s:11:"Single gene";i:15;s:7:"1812981";i:16;s:11:"TM1040_2496";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_008044.1";i:2;s:20:"Ruegeria sp. TM1040 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2982627-2982731";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2981593-2982574";i:10;s:1:"-";i:11;s:4:"tbpA";i:12;s:58:"ABC transporter periplasmic binding protein thiB subfamily";i:13;s:11:"TM1040_2818";i:14;s:6:"Operon";i:15;s:6:"195101";i:16;s:47:"TM1040_2816;TM1040_2817(thiP);TM1040_2818(tbpA)";i:17;s:31:"thiamine transport [GO:0015888]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_008044.1";i:2;s:20:"Ruegeria sp. TM1040 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"3101368-3101583";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"3101670-3102390";i:10;s:1:"+";i:11;s:11:"TM1040_2933";i:12;s:0:"";i:13;s:11:"TM1040_2933";i:14;s:6:"Operon";i:15;s:6:"195126";i:16;s:47:"TM1040_2933;TM1040_2934;TM1040_2935;TM1040_2936";i:17;s:0:"";i:18;s:15:"View Structure ";}}
