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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
139642-139778
(+)
MOCO
140828-141353 (+)
Shal_0123
Molybdenum cofactor biosynthesis protein B
Shal_0123
Operon
DOOR ID:
390323
Shal_0122
(moaA)
,
Shal_0123,
Shal_0124
(moaC)
,
Shal_0125,
Shal_0126,
Shal_0127,
Shal_0128,
Shal_0129
View Structure
2
907577-907680
(-)
yybP-ykoY
906905-907460 (-)
Shal_0730
Shal_0730
Single gene
DOOR ID:
2219062
Shal_0730
View Structure
3
952713-952846
(+)
glycine
953050-954421 (+)
Shal_0768
Amino acid carrier protein
Shal_0768
Single gene
DOOR ID:
2219084
Shal_0768
View Structure
4
983827-984009
(+)
lysine
984153-985539 (+)
Shal_0788
Aspartokinase
Shal_0788
Operon
DOOR ID:
390440
Shal_0788,
Shal_0789
View Structure
5
2282708-2282806
(+)
TPP
2282951-2284940 (+)
Shal_1900
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Shal_1900
Operon
DOOR ID:
390625
Shal_1900,
Shal_1901,
Shal_1902,
Shal_1903,
Shal_1904,
Shal_1905
(thiH)
View Structure
6
2968195-2968325
(-)
TPP
2966003-2968142 (-)
Shal_2461
TonB-dependent receptor
Shal_2461
Single gene
DOOR ID:
2219959
Shal_2461
View Structure
7
3578706-3578927
(-)
lysine
3577045-3578626 (-)
Shal_2943
Na+/H+ antiporter NhaC
Shal_2943
Single gene
DOOR ID:
2220204
Shal_2943
View Structure
8
4007530-4007740
(-)
cobalamin
4005551-4007405 (-)
Shal_3286
TonB-dependent receptor plug
Shal_3286
Single gene
DOOR ID:
2220380
Shal_3286
View Structure
9
4073646-4073819
(-)
lysine
4071980-4073564 (-)
Shal_3334
Na+/H+ antiporter NhaC
Shal_3334
Single gene
DOOR ID:
2220418
Shal_3334
View Structure
10
4214985-4215138
(-)
cobalamin
4213926-4214856 (-)
Shal_3460
ABC transporter related
Shal_3460
Operon
DOOR ID:
390890
Shal_3458
(cobT)
,
Shal_3459,
Shal_3460
View Structure
11
4234642-4234741
(+)
purine
4234831-4235827 (+)
Shal_3477
Adenosine deaminase (Adenosine aminohydrolase)
Shal_3477
Single gene
DOOR ID:
2220500
Shal_3477
View Structure
12
4237453-4237540
(+)
c-di-GMP-I
4237643-4241054 (+)
Shal_3479
TagA-related protein
Shal_3479
single gene
DOOR ID:
2220502
Shal_3479
View Structure
13
4546656-4546741
(-)
c-di-GMP-I
4544401-4546585 (-)
Shal_3745
Glycoside hydrolase family 18
Shal_3745
single gene
DOOR ID:
2220627
Shal_3745
View Structure
14
4550968-4551067
(+)
purine
4551208-4552579 (+)
Shal_3750
Xanthine/uracil/vitamin C permease
Shal_3750
Single gene
DOOR ID:
2220630
Shal_3750
View Structure
15
5089089-5089356
(+)
FMN
5089521-5090160 (+)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
Shal_4187
Single gene
DOOR ID:
2220827
Shal_4187
(ribB)
View Structure
Genome:
Shewanella halifaxensis HAW-EB4
(
NC_010334.1
);
Phylum:
Gammaproteobacteria
a:16:{i:0;a:18:{i:0;s:5:"S.No.";i:1;s:9:"Genome_ID";i:2;s:11:"Genome_Name";i:3;s:13:"Taxonomy_name";i:4;s:6:"Tax_ID";i:5;s:19:"Riboswitch_Location";i:6;s:17:"Riboswitch_strand";i:7;s:16:"Riboswitch_class";i:8;s:14:"Tandem_Aptamer";i:9;s:24:"Downstream_gene_location";i:10;s:11:"Gene_Strand";i:11;s:20:"Downstream_gene_name";i:12;s:24:"Gene_product_description";i:13;s:9:"Locus_tag";i:14;s:25:"Single_gene/within_operon";i:15;s:9:"Operon_ID";i:16;s:14:"Operon_details";i:17;s:22:"Biological_process[GO]";}i:1;a:19:{i:0;i:1;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"139642-139778";i:6;s:1:"+";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:13:"140828-141353";i:10;s:1:"+";i:11;s:9:"Shal_0123";i:12;s:42:"Molybdenum cofactor biosynthesis protein B";i:13;s:9:"Shal_0123";i:14;s:6:"Operon";i:15;s:6:"390323";i:16;s:91:"Shal_0122(moaA);Shal_0123;Shal_0124(moaC);Shal_0125;Shal_0126;Shal_0127;Shal_0128;Shal_0129";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"907577-907680";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:13:"906905-907460";i:10;s:1:"-";i:11;s:9:"Shal_0730";i:12;s:0:"";i:13;s:9:"Shal_0730";i:14;s:11:"Single gene";i:15;s:7:"2219062";i:16;s:9:"Shal_0730";i:17;s:0:"";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"952713-952846";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:13:"953050-954421";i:10;s:1:"+";i:11;s:9:"Shal_0768";i:12;s:26:"Amino acid carrier protein";i:13;s:9:"Shal_0768";i:14;s:11:"Single gene";i:15;s:7:"2219084";i:16;s:9:"Shal_0768";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"983827-984009";i:6;s:1:"+";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:13:"984153-985539";i:10;s:1:"+";i:11;s:9:"Shal_0788";i:12;s:14:"Aspartokinase ";i:13;s:9:"Shal_0788";i:14;s:6:"Operon";i:15;s:6:"390440";i:16;s:19:"Shal_0788;Shal_0789";i:17;s:105:"lysine biosynthetic process via diaminopimelate [GO:0009089]; threonine biosynthetic process [GO:0009088]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2282708-2282806";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2282951-2284940";i:10;s:1:"+";i:11;s:9:"Shal_1900";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:9:"Shal_1900";i:14;s:6:"Operon";i:15;s:6:"390625";i:16;s:65:"Shal_1900;Shal_1901;Shal_1902;Shal_1903;Shal_1904;Shal_1905(thiH)";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_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2968195-2968325";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2966003-2968142";i:10;s:1:"-";i:11;s:9:"Shal_2461";i:12;s:23:"TonB-dependent receptor";i:13;s:9:"Shal_2461";i:14;s:11:"Single gene";i:15;s:7:"2219959";i:16;s:9:"Shal_2461";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3578706-3578927";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"3577045-3578626";i:10;s:1:"-";i:11;s:9:"Shal_2943";i:12;s:22:"Na+/H+ antiporter NhaC";i:13;s:9:"Shal_2943";i:14;s:11:"Single gene";i:15;s:7:"2220204";i:16;s:9:"Shal_2943";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4007530-4007740";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4005551-4007405";i:10;s:1:"-";i:11;s:9:"Shal_3286";i:12;s:28:"TonB-dependent receptor plug";i:13;s:9:"Shal_3286";i:14;s:11:"Single gene";i:15;s:7:"2220380";i:16;s:9:"Shal_3286";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4073646-4073819";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"4071980-4073564";i:10;s:1:"-";i:11;s:9:"Shal_3334";i:12;s:22:"Na+/H+ antiporter NhaC";i:13;s:9:"Shal_3334";i:14;s:11:"Single gene";i:15;s:7:"2220418";i:16;s:9:"Shal_3334";i:17;s:0:"";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4214985-4215138";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4213926-4214856";i:10;s:1:"-";i:11;s:9:"Shal_3460";i:12;s:23:"ABC transporter related";i:13;s:9:"Shal_3460";i:14;s:6:"Operon";i:15;s:6:"390890";i:16;s:35:"Shal_3458(cobT);Shal_3459;Shal_3460";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4234642-4234741";i:6;s:1:"+";i:7;s:6:"purine";i:8;s:0:"";i:9;s:15:"4234831-4235827";i:10;s:1:"+";i:11;s:9:"Shal_3477";i:12;s:47:"Adenosine deaminase (Adenosine aminohydrolase)";i:13;s:9:"Shal_3477";i:14;s:11:"Single gene";i:15;s:7:"2220500";i:16;s:9:"Shal_3477";i:17;s:112:"nucleotide metabolic process [GO:0009117]; purine ribonucleoside monophosphate biosynthetic process [GO:0009168]";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4237453-4237540";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"4237643-4241054";i:10;s:1:"+";i:11;s:9:"Shal_3479";i:12;s:20:"TagA-related protein";i:13;s:9:"Shal_3479";i:14;s:11:"single gene";i:15;s:7:"2220502";i:16;s:9:"Shal_3479";i:17;s:0:"";i:18;s:15:"View Structure ";}i:13;a:19:{i:0;i:13;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4546656-4546741";i:6;s:1:"-";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"4544401-4546585";i:10;s:1:"-";i:11;s:9:"Shal_3745";i:12;s:29:"Glycoside hydrolase family 18";i:13;s:9:"Shal_3745";i:14;s:11:"single gene";i:15;s:7:"2220627";i:16;s:9:"Shal_3745";i:17;s:43:"carbohydrate metabolic process [GO:0005975]";i:18;s:15:"View Structure ";}i:14;a:19:{i:0;i:14;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4550968-4551067";i:6;s:1:"+";i:7;s:6:"purine";i:8;s:0:"";i:9;s:15:"4551208-4552579";i:10;s:1:"+";i:11;s:9:"Shal_3750";i:12;s:34:"Xanthine/uracil/vitamin C permease";i:13;s:9:"Shal_3750";i:14;s:11:"Single gene";i:15;s:7:"2220630";i:16;s:9:"Shal_3750";i:17;s:0:"";i:18;s:15:"View Structure ";}i:15;a:19:{i:0;i:15;i:1;s:11:"NC_010334.1";i:2;s:32:"Shewanella halifaxensis HAW-EB4 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"5089089-5089356";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"5089521-5090160";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:9:"Shal_4187";i:14;s:11:"Single gene";i:15;s:7:"2220827";i:16;s:15:"Shal_4187(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}}
