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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
79158-79257
(-)
TPP
78143-79139 (-)
tbpA
Thiamine-binding periplasmic protein
APECO1_1914
Operon
DOOR ID:
236440
APECO1_1916
(thiQ)
,
APECO1_1915
(thiP)
,
APECO1_1914
(tbpA)
View Structure
2
781456-781600
(+)
MOCO
782598-783111 (+)
moaB
Molybdenum cofactor biosynthesis protein B
APECO1_1307
Operon
DOOR ID:
236560
APECO1_1308
(moaA)
,
APECO1_1307
(moaB)
,
APECO1_1306
(moaC)
View Structure
3
1913370-1913471
(+)
yybP-ykoY
1913547-1914168 (+)
yebN
Probable manganese efflux pump MntP
APECO1_878
Single gene
DOOR ID:
1904317
APECO1_878
(yebN)
View Structure
4
1970735-1970783
(+)
mini-ykkC
1970797-1971112 (+)
Shewana3_1676
Shewana3_1676
Single gene
DOOR ID:
1910990
Shewana3_1676
View Structure
5
2298870-2298966
(-)
TPP
2298046-2298835 (-)
thiM
Hydroxyethylthiazole kinase (0) (4-methyl-5-beta-hydroxyethylthiazole kinase) (TH kinase) (Thz kinase)
APECO1_4441
Operon
DOOR ID:
236811
APECO1_4444
(yegW)
,
APECO1_4443
(yegX)
,
APECO1_4442
(thiD)
,
APECO1_4441
(thiM)
View Structure
6
3492218-3492366
(-)
FMN
3491460-3492114 (-)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
APECO1_3366
Single gene
DOOR ID:
1904745
APECO1_3366
(ribB)
View Structure
7
4485106-4485296
(+)
cobalamin
4485360-4487205 (+)
btuB
Vitamin B12 transporter BtuB (Cobalamin receptor) (Outer membrane cobalamin translocator)
APECO1_2497
Operon
DOOR ID:
237225
APECO1_2497
(btuB)
,
APECO1_2496
(murI)
View Structure
8
4516718-4516818
(-)
TPP
4514741-4516637 (-)
thiC
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
APECO1_2481
Operon
DOOR ID:
237231
APECO1_2482
(thiF)
,
APECO1_24812
(thiE)
,
APECO1_2481
(thiC)
View Structure
9
4558173-4558369
(-)
lysine
4556731-4558081 (-)
lysC
Aspartokinase
APECO1_2444
Single gene
DOOR ID:
1905040
APECO1_2444
(lysC)
View Structure
10
4882209-4882324
(+)
Mg sensor
4882417-4885114 (+)
mgtA
Mg2+ transport ATPase; P-type 1
APECO1_2150
Single gene
DOOR ID:
1905155
APECO1_2150
(mgtA)
View Structure
Genome:
Escherichia coli APEC O1
(
NC_008563.1
);
Phylum:
Gammaproteobacteria
a:11:{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_008563.1";i:2;s:25:"Escherichia coli APEC O1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:11:"79158-79257";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:11:"78143-79139";i:10;s:1:"-";i:11;s:4:"tbpA";i:12;s:36:"Thiamine-binding periplasmic protein";i:13;s:11:"APECO1_1914";i:14;s:6:"Operon";i:15;s:6:"236440";i:16;s:53:"APECO1_1916(thiQ);APECO1_1915(thiP);APECO1_1914(tbpA)";i:17;s:31:"thiamine transport [GO:0015888]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_008563.1";i:2;s:25:"Escherichia coli APEC O1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"781456-781600";i:6;s:1:"+";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:13:"782598-783111";i:10;s:1:"+";i:11;s:4:"moaB";i:12;s:42:"Molybdenum cofactor biosynthesis protein B";i:13;s:11:"APECO1_1307";i:14;s:6:"Operon";i:15;s:6:"236560";i:16;s:53:"APECO1_1308(moaA);APECO1_1307(moaB);APECO1_1306(moaC)";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_008563.1";i:2;s:25:"Escherichia coli APEC O1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1913370-1913471";i:6;s:1:"+";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"1913547-1914168";i:10;s:1:"+";i:11;s:4:"yebN";i:12;s:35:"Probable manganese efflux pump MntP";i:13;s:10:"APECO1_878";i:14;s:11:"Single gene";i:15;s:7:"1904317";i:16;s:16:"APECO1_878(yebN)";i:17;s:26:"ion transport [GO:0006811]";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_008563.1";i:2;s:25:"Escherichia coli APEC O1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1970735-1970783";i:6;s:1:"+";i:7;s:9:"mini-ykkC";i:8;s:0:"";i:9;s:15:"1970797-1971112";i:10;s:1:"+";i:11;s:13:"Shewana3_1676";i:12;s:0:"";i:13;s:13:"Shewana3_1676";i:14;s:11:"Single gene";i:15;s:7:"1910990";i:16;s:13:"Shewana3_1676";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_008563.1";i:2;s:25:"Escherichia coli APEC O1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2298870-2298966";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2298046-2298835";i:10;s:1:"-";i:11;s:4:"thiM";i:12;s:102:"Hydroxyethylthiazole kinase (0) (4-methyl-5-beta-hydroxyethylthiazole kinase) (TH kinase) (Thz kinase)";i:13;s:11:"APECO1_4441";i:14;s:6:"Operon";i:15;s:6:"236811";i:16;s:71:"APECO1_4444(yegW);APECO1_4443(yegX);APECO1_4442(thiD);APECO1_4441(thiM)";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_008563.1";i:2;s:25:"Escherichia coli APEC O1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3492218-3492366";i:6;s:1:"-";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"3491460-3492114";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:11:"APECO1_3366";i:14;s:11:"Single gene";i:15;s:7:"1904745";i:16;s:17:"APECO1_3366(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_008563.1";i:2;s:25:"Escherichia coli APEC O1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4485106-4485296";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4485360-4487205";i:10;s:1:"+";i:11;s:4:"btuB";i:12;s:89:"Vitamin B12 transporter BtuB (Cobalamin receptor) (Outer membrane cobalamin translocator)";i:13;s:11:"APECO1_2497";i:14;s:6:"Operon";i:15;s:6:"237225";i:16;s:35:"APECO1_2497(btuB);APECO1_2496(murI)";i:17;s:26:"ion transport [GO:0006811]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_008563.1";i:2;s:25:"Escherichia coli APEC O1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4516718-4516818";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"4514741-4516637";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:11:"APECO1_2481";i:14;s:6:"Operon";i:15;s:6:"237231";i:16;s:54:"APECO1_2482(thiF);APECO1_24812(thiE);APECO1_2481(thiC)";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_008563.1";i:2;s:25:"Escherichia coli APEC O1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4558173-4558369";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"4556731-4558081";i:10;s:1:"-";i:11;s:4:"lysC";i:12;s:14:"Aspartokinase ";i:13;s:11:"APECO1_2444";i:14;s:11:"Single gene";i:15;s:7:"1905040";i:16;s:17:"APECO1_2444(lysC)";i:17;s:105:"lysine biosynthetic process via diaminopimelate [GO:0009089]; threonine biosynthetic process [GO:0009088]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_008563.1";i:2;s:25:"Escherichia coli APEC O1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4882209-4882324";i:6;s:1:"+";i:7;s:9:"Mg sensor";i:8;s:0:"";i:9;s:15:"4882417-4885114";i:10;s:1:"+";i:11;s:4:"mgtA";i:12;s:31:"Mg2+ transport ATPase; P-type 1";i:13;s:11:"APECO1_2150";i:14;s:11:"Single gene";i:15;s:7:"1905155";i:16;s:17:"APECO1_2150(mgtA)";i:17;s:0:"";i:18;s:15:"View Structure ";}}
