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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
789306-789556
(+)
cobalamin
789586-790513 (+)
SVI_0654
Iron-compound ABC transporter; ATP-binding protein; putative
SVI_0654
Single gene
DOOR ID:
2819296
SVI_0654
View Structure
2
990519-990638
(+)
c-di-GMP-I
990784-993376 (+)
chiA
Chitinase A
SVI_0856
single gene
DOOR ID:
2819402
SVI_0856
(chiA)
View Structure
3
1478133-1478351
(+)
lysine
1478429-1479998 (+)
SVI_1270
Na+/H+ antiporter family protein
SVI_1270
Single gene
DOOR ID:
2819613
SVI_1270
View Structure
4
2720369-2720467
(-)
TPP
2718161-2720150 (-)
thiC
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
SVI_2371
Operon
DOOR ID:
685422
SVI_2366
(thiH)
,
SVI_2367
(thiG)
,
SVI_2368
(thiS)
,
SVI_2369,
SVI_2370
(thiDE)
,
SVI_2371
(thiC)
View Structure
5
3051913-3052029
(-)
TPP
3049639-3051814 (-)
SVI_2685
TonB-dependent receptor
SVI_2685
Single gene
DOOR ID:
2820303
SVI_2685
View Structure
6
3915840-3915939
(+)
purine
3916051-3917047 (+)
add
Adenosine deaminase (Adenosine aminohydrolase)
SVI_3453
Single gene
DOOR ID:
2820716
SVI_3453
(add)
View Structure
7
3938827-3939033
(-)
cobalamin
3936697-3938701 (-)
SVI_3472
TonB-dependent receptor
SVI_3472
Single gene
DOOR ID:
2820733
SVI_3472
View Structure
8
4070627-4070802
(-)
lysine
4069129-4070506 (-)
lysC
Aspartokinase
SVI_3595
Operon
DOOR ID:
685620
SVI_3594,
SVI_3595
(lysC)
View Structure
9
4086207-4086339
(-)
glycine
4084713-4086060 (-)
SVI_3605
Sodium:alanine symporter family protein
SVI_3605
Single gene
DOOR ID:
2820825
SVI_3605
View Structure
10
4086345-4086456
(-)
glycine
4084713-4086060 (-)
SVI_3605
Sodium:alanine symporter family protein
SVI_3605
Single gene
DOOR ID:
2820825
SVI_3605
View Structure
11
4139769-4139902
(+)
yybP-ykoY
4139990-4140566 (+)
SVI_3658
SVI_3658
Single gene
DOOR ID:
2820860
SVI_3658
View Structure
12
4822422-4822672
(+)
FMN
4822828-4823482 (+)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
SVI_4217
Single gene
DOOR ID:
2821129
SVI_4217
(ribB)
View Structure
13
4848297-4848431
(-)
MOCO
4846666-4847152 (-)
moaC
Cyclic pyranopterin monophosphate synthase (7) (Molybdenum cofactor biosynthesis protein C)
SVI_4246
Operon
DOOR ID:
685733
SVI_4241,
SVI_4242,
SVI_4243
(modA)
,
SVI_4244
(moaE)
,
SVI_4245
(moaD)
,
SVI_4246
(moaC)
View Structure
Genome:
Shewanella violacea DSS12
(
NC_014012.1
);
Phylum:
Gammaproteobacteria
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chitin catabolic process [GO:0006032]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1478133-1478351";i:6;s:1:"+";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"1478429-1479998";i:10;s:1:"+";i:11;s:8:"SVI_1270";i:12;s:32:"Na+/H+ antiporter family protein";i:13;s:8:"SVI_1270";i:14;s:11:"Single gene";i:15;s:7:"2819613";i:16;s:8:"SVI_1270";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2720369-2720467";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2718161-2720150";i:10;s:1:"-";i:11;s:4:"thiC";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:8:"SVI_2371";i:14;s:6:"Operon";i:15;s:6:"685422";i:16;s:84:"SVI_2366(thiH);SVI_2367(thiG);SVI_2368(thiS);SVI_2369;SVI_2370(thiDE);SVI_2371(thiC)";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3051913-3052029";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"3049639-3051814";i:10;s:1:"-";i:11;s:8:"SVI_2685";i:12;s:23:"TonB-dependent receptor";i:13;s:8:"SVI_2685";i:14;s:11:"Single gene";i:15;s:7:"2820303";i:16;s:8:"SVI_2685";i:17;s:0:"";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3915840-3915939";i:6;s:1:"+";i:7;s:6:"purine";i:8;s:0:"";i:9;s:15:"3916051-3917047";i:10;s:1:"+";i:11;s:3:"add";i:12;s:47:"Adenosine deaminase (Adenosine aminohydrolase)";i:13;s:8:"SVI_3453";i:14;s:11:"Single gene";i:15;s:7:"2820716";i:16;s:13:"SVI_3453(add)";i:17;s:112:"nucleotide metabolic process [GO:0009117]; purine ribonucleoside monophosphate biosynthetic process [GO:0009168]";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3938827-3939033";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"3936697-3938701";i:10;s:1:"-";i:11;s:8:"SVI_3472";i:12;s:23:"TonB-dependent receptor";i:13;s:8:"SVI_3472";i:14;s:11:"Single gene";i:15;s:7:"2820733";i:16;s:8:"SVI_3472";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4070627-4070802";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"4069129-4070506";i:10;s:1:"-";i:11;s:4:"lysC";i:12;s:14:"Aspartokinase ";i:13;s:8:"SVI_3595";i:14;s:6:"Operon";i:15;s:6:"685620";i:16;s:23:"SVI_3594;SVI_3595(lysC)";i:17;s:105:"lysine biosynthetic process via diaminopimelate [GO:0009089]; threonine biosynthetic process [GO:0009088]";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4086207-4086339";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"4084713-4086060";i:10;s:1:"-";i:11;s:8:"SVI_3605";i:12;s:39:"Sodium:alanine symporter family protein";i:13;s:8:"SVI_3605";i:14;s:11:"Single gene";i:15;s:7:"2820825";i:16;s:8:"SVI_3605";i:17;s:0:"";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4086345-4086456";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"4084713-4086060";i:10;s:1:"-";i:11;s:8:"SVI_3605";i:12;s:39:"Sodium:alanine symporter family protein";i:13;s:8:"SVI_3605";i:14;s:11:"Single gene";i:15;s:7:"2820825";i:16;s:8:"SVI_3605";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4139769-4139902";i:6;s:1:"+";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"4139990-4140566";i:10;s:1:"+";i:11;s:8:"SVI_3658";i:12;s:0:"";i:13;s:8:"SVI_3658";i:14;s:11:"Single gene";i:15;s:7:"2820860";i:16;s:8:"SVI_3658";i:17;s:0:"";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4822422-4822672";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"4822828-4823482";i:10;s:1:"+";i:11;s:4:"ribB";i:12;s:65:"3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)";i:13;s:8:"SVI_4217";i:14;s:11:"Single gene";i:15;s:7:"2821129";i:16;s:14:"SVI_4217(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}i:13;a:19:{i:0;i:13;i:1;s:11:"NC_014012.1";i:2;s:26:"Shewanella violacea DSS12 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4848297-4848431";i:6;s:1:"-";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:15:"4846666-4847152";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:8:"SVI_4246";i:14;s:6:"Operon";i:15;s:6:"685733";i:16;s:77:"SVI_4241;SVI_4242;SVI_4243(modA);SVI_4244(moaE);SVI_4245(moaD);SVI_4246(moaC)";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}}
