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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
151051-151287
(-)
FMN
150202-150856 (-)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
SO_0142
Single gene
DOOR ID:
1526332
SO_0142
(ribB)
View Structure
2
826816-827046
(+)
cobalamin
827154-829116 (+)
btuB
TonB-dependent vitamin B12 receptor BtuB
SO_0815
Single gene
DOOR ID:
1526610
SO_0815
View Structure
3
880938-881061
(+)
glycine
881215-882574 (+)
glyP
Na(+)-linked D-alanine glycine transporter GlyP
SO_0858
Single gene
DOOR ID:
1526629
SO_0858
View Structure
4
1041892-1042063
(+)
lysine
1042149-1043730 (+)
lysW
Lysine transporter LysW
SO_1007
Single gene
DOOR ID:
1526720
SO_1007
View Structure
5
1071672-1071894
(+)
cobalamin
1072020-1072965 (+)
btuD
ABC-type cobalamin uptake system ATPase component BtuD (3)
SO_1033
Operon
DOOR ID:
70616
SO_1033,
SO_1034
View Structure
6
1112162-1112271
(-)
yybP-ykoY
1111520-1112075 (-)
SO_1071
SO_1071
Single gene
DOOR ID:
1526747
SO_1071
View Structure
7
1112481-1112574
(+)
c-di-GMP-I
1112702-1114178 (+)
gbpA
GlcNAc-binding protein A
SO_1072
single gene
DOOR ID:
1526748
SO_1072
View Structure
8
2001434-2001482
(+)
mini-ykkC
2001496-2001811 (+)
sugE
SO_1901
Single gene
DOOR ID:
1527109
SO_1901
(sugE)
View Structure
9
2560868-2560966
(-)
TPP
2558540-2560706 (-)
thiC
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
SO_2445
Operon
DOOR ID:
70843
SO_2440
(thiH)
,
SO_2441
(thiG)
,
SO_2442
(thiS)
,
SO_2443
(thiF)
,
SO_2444
(thiDE)
,
SO_2445
(thiC)
View Structure
10
2834860-2834969
(-)
TPP
2832604-2834806 (-)
SO_2715
Thiamine-regulated TonB-dependent receptor
SO_2715
Single gene
DOOR ID:
1527464
SO_2715
View Structure
11
4124569-4124743
(-)
lysine
4123069-4124425 (-)
lysC
Aspartokinase
SO_3986
Operon
DOOR ID:
71088
SO_3985,
SO_3986
(lysC)
View Structure
12
4641110-4641243
(-)
MOCO
4639548-4640028 (-)
moaC
Cyclic pyranopterin monophosphate synthase (7) (Molybdenum cofactor biosynthesis protein C)
SO_4451
Operon
DOOR ID:
71160
SO_4446,
SO_4447,
SO_4448,
SO_4449
(moaE)
,
SO_4450
(moaD)
,
SO_4451
(moaC)
,
SO_4452
(moaA)
View Structure
Genome:
Shewanella oneidensis MR-1
(
NC_004347.2
);
Phylum:
Gammaproteobacteria
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thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_004347.2";i:2;s:27:"Shewanella oneidensis MR-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2834860-2834969";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2832604-2834806";i:10;s:1:"-";i:11;s:7:"SO_2715";i:12;s:42:"Thiamine-regulated TonB-dependent receptor";i:13;s:7:"SO_2715";i:14;s:11:"Single gene";i:15;s:7:"1527464";i:16;s:7:"SO_2715";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_004347.2";i:2;s:27:"Shewanella oneidensis MR-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4124569-4124743";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"4123069-4124425";i:10;s:1:"-";i:11;s:4:"lysC";i:12;s:14:"Aspartokinase ";i:13;s:7:"SO_3986";i:14;s:6:"Operon";i:15;s:5:"71088";i:16;s:21:"SO_3985;SO_3986(lysC)";i:17;s:105:"lysine biosynthetic process via diaminopimelate [GO:0009089]; threonine biosynthetic process [GO:0009088]";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_004347.2";i:2;s:27:"Shewanella oneidensis MR-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4641110-4641243";i:6;s:1:"-";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:15:"4639548-4640028";i:10;s:1:"-";i:11;s:4:"moaC";i:12;s:91:"Cyclic pyranopterin monophosphate synthase (7) (Molybdenum cofactor biosynthesis protein C)";i:13;s:7:"SO_4451";i:14;s:6:"Operon";i:15;s:5:"71160";i:16;s:79:"SO_4446;SO_4447;SO_4448;SO_4449(moaE);SO_4450(moaD);SO_4451(moaC);SO_4452(moaA)";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}}
