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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
228516-228718
(+)
cobalamin
228785-230657 (+)
btuB
Vitamin B12 transporter BtuB (Cobalamin receptor) (Outer membrane cobalamin translocator)
Dda3937_03897
Operon
DOOR ID:
1188606
Dda3937_03897
(btuB)
,
Dda3937_03898
(murI)
View Structure
2
269767-269882
(-)
TPP
267636-269604 (-)
thiC
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Dda3937_00235
Operon
DOOR ID:
1188614
Dda3937_00230
(thiH)
,
Dda3937_00231
(thiG)
,
Dda3937_00232
(thiS)
,
Dda3937_00233
(thiF)
,
Dda3937_00234
(thiE)
,
Dda3937_00235
(thiC)
View Structure
3
996705-996864
(+)
FMN
996992-997646 (+)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
Dda3937_01433
Single gene
DOOR ID:
2936810
Dda3937_01433
(ribB)
View Structure
4
1376557-1376618
(-)
fluoride
1376113-1376497 (-)
crcB
Putative fluoride ion transporter CrcB
Dda3937_02492
Single gene
DOOR ID:
2936949
Dda3937_02492
(crcB)
View Structure
5
1935430-1935573
(+)
MOCO
1936581-1937094 (+)
moaB
Molybdenum cofactor biosynthesis protein B
Dda3937_03762
Operon
DOOR ID:
1188947
Dda3937_03761
(moaA)
,
Dda3937_03762
(moaB)
,
Dda3937_03763
(moaC)
,
Dda3937_03764
(moaD)
,
Dda3937_03765
(moaE)
View Structure
6
2325303-2325397
(+)
glycine
2325418-2326039 (+)
yicG
Conserved inner membrane protein
Dda3937_04047
Single gene
DOOR ID:
2937310
Dda3937_04047
(yicG)
View Structure
7
2568011-2568194
(+)
yybP-ykoY
2568201-2568774 (+)
yebN
Putative manganese efflux pump MntP
Dda3937_04594
Single gene
DOOR ID:
2937421
Dda3937_04594
(yebN)
View Structure
8
3522636-3522740
(-)
TPP
3521806-3522601 (-)
thiM
Hydroxyethylthiazole kinase (0) (4-methyl-5-beta-hydroxyethylthiazole kinase) (TH kinase) (Thz kinase)
Dda3937_02806
Operon
DOOR ID:
1189222
Dda3937_02807
(thiD)
,
Dda3937_02806
(thiM)
View Structure
9
4145461-4145571
(+)
TPP
4145613-4146630 (+)
tbpA
Thiamin transporter subunit periplasmic-binding component of ABC superfamily
Dda3937_01357
Operon
DOOR ID:
1189339
Dda3937_01357
(tbpA)
,
Dda3937_01358
(thiP)
,
Dda3937_01359
(thiQ)
,
Dda3937_01360,
Dda3937_01361
(ilvB)
,
Dda3937_01362
(ilvN)
View Structure
10
4344954-4345151
(+)
lysine
4345268-4346633 (+)
lysC
Aspartokinase
Dda3937_02135
Single gene
DOOR ID:
2938079
Dda3937_02135
(lysC)
View Structure
11
4775001-4775095
(+)
ykkC-yxkD
4775166-4776222 (+)
Dda3937_00997
Urea carboxylase-related ABC transporter; periplasmic substrate-binding protein
Dda3937_00997
Operon
DOOR ID:
1189445
Dda3937_00997,
Dda3937_00998
(tauC)
,
Dda3937_00999,
Dda3937_01000,
Dda3937_01001
View Structure
12
4779265-4779313
(+)
mini-ykkC
4779330-4782924 (+)
Dda3937_01002
Dda3937_01002
Single gene
DOOR ID:
2938234
Dda3937_01002
View Structure
Genome:
Dickeya dadantii 3937
(
NC_014500.1
);
Phylum:
Gammaproteobacteria
a:13:{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_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"228516-228718";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"228785-230657";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:13:"Dda3937_03897";i:14;s:6:"Operon";i:15;s:7:"1188606";i:16;s:39:"Dda3937_03897(btuB);Dda3937_03898(murI)";i:17;s:26:"ion transport [GO:0006811]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"269767-269882";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:13:"267636-269604";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:13:"Dda3937_00235";i:14;s:6:"Operon";i:15;s:7:"1188614";i:16;s:119:"Dda3937_00230(thiH);Dda3937_00231(thiG);Dda3937_00232(thiS);Dda3937_00233(thiF);Dda3937_00234(thiE);Dda3937_00235(thiC)";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"996705-996864";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:13:"996992-997646";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:13:"Dda3937_01433";i:14;s:11:"Single gene";i:15;s:7:"2936810";i:16;s:19:"Dda3937_01433(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1376557-1376618";i:6;s:1:"-";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:15:"1376113-1376497";i:10;s:1:"-";i:11;s:4:"crcB";i:12;s:38:"Putative fluoride ion transporter CrcB";i:13;s:13:"Dda3937_02492";i:14;s:11:"Single gene";i:15;s:7:"2936949";i:16;s:19:"Dda3937_02492(crcB)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1935430-1935573";i:6;s:1:"+";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:15:"1936581-1937094";i:10;s:1:"+";i:11;s:4:"moaB";i:12;s:42:"Molybdenum cofactor biosynthesis protein B";i:13;s:13:"Dda3937_03762";i:14;s:6:"Operon";i:15;s:7:"1188947";i:16;s:99:"Dda3937_03761(moaA);Dda3937_03762(moaB);Dda3937_03763(moaC);Dda3937_03764(moaD);Dda3937_03765(moaE)";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2325303-2325397";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"2325418-2326039";i:10;s:1:"+";i:11;s:4:"yicG";i:12;s:32:"Conserved inner membrane protein";i:13;s:13:"Dda3937_04047";i:14;s:11:"Single gene";i:15;s:7:"2937310";i:16;s:19:"Dda3937_04047(yicG)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2568011-2568194";i:6;s:1:"+";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"2568201-2568774";i:10;s:1:"+";i:11;s:4:"yebN";i:12;s:35:"Putative manganese efflux pump MntP";i:13;s:13:"Dda3937_04594";i:14;s:11:"Single gene";i:15;s:7:"2937421";i:16;s:19:"Dda3937_04594(yebN)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3522636-3522740";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"3521806-3522601";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:13:"Dda3937_02806";i:14;s:6:"Operon";i:15;s:7:"1189222";i:16;s:39:"Dda3937_02807(thiD);Dda3937_02806(thiM)";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_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4145461-4145571";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"4145613-4146630";i:10;s:1:"+";i:11;s:4:"tbpA";i:12;s:76:"Thiamin transporter subunit periplasmic-binding component of ABC superfamily";i:13;s:13:"Dda3937_01357";i:14;s:6:"Operon";i:15;s:7:"1189339";i:16;s:113:"Dda3937_01357(tbpA);Dda3937_01358(thiP);Dda3937_01359(thiQ);Dda3937_01360;Dda3937_01361(ilvB);Dda3937_01362(ilvN)";i:17;s:69:"thiamine transport [GO:0015888]; transmembrane transport [GO:0055085]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4344954-4345151";i:6;s:1:"+";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"4345268-4346633";i:10;s:1:"+";i:11;s:4:"lysC";i:12;s:14:"Aspartokinase ";i:13;s:13:"Dda3937_02135";i:14;s:11:"Single gene";i:15;s:7:"2938079";i:16;s:19:"Dda3937_02135(lysC)";i:17;s:105:"lysine biosynthetic process via diaminopimelate [GO:0009089]; threonine biosynthetic process [GO:0009088]";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4775001-4775095";i:6;s:1:"+";i:7;s:9:"ykkC-yxkD";i:8;s:0:"";i:9;s:15:"4775166-4776222";i:10;s:1:"+";i:11;s:13:"Dda3937_00997";i:12;s:79:"Urea carboxylase-related ABC transporter; periplasmic substrate-binding protein";i:13;s:13:"Dda3937_00997";i:14;s:6:"Operon";i:15;s:7:"1189445";i:16;s:75:"Dda3937_00997;Dda3937_00998(tauC);Dda3937_00999;Dda3937_01000;Dda3937_01001";i:17;s:0:"";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_014500.1";i:2;s:22:"Dickeya dadantii 3937 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4779265-4779313";i:6;s:1:"+";i:7;s:9:"mini-ykkC";i:8;s:0:"";i:9;s:15:"4779330-4782924";i:10;s:1:"+";i:11;s:13:"Dda3937_01002";i:12;s:0:"";i:13;s:13:"Dda3937_01002";i:14;s:11:"Single gene";i:15;s:7:"2938234";i:16;s:13:"Dda3937_01002";i:17;s:0:"";i:18;s:15:"View Structure ";}}
