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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
475837-476009
(+)
FMN
476227-476962 (+)
Bphy_0417
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
Bphy_0417
Single gene
DOOR ID:
2296163
Bphy_0417
View Structure
2
775564-775746
(-)
yybP-ykoY
774936-775509 (-)
Bphy_0688
Bphy_0688
Single gene
DOOR ID:
2296299
Bphy_0688
View Structure
3
1711991-1712118
(+)
TPP
1712222-1714154 (+)
Bphy_1518
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Bphy_1518
Single gene
DOOR ID:
2296675
Bphy_1518
View Structure
4
2012557-2012617
(+)
fluoride
2012692-2013073 (+)
Bphy_1762
Putative fluoride ion transporter CrcB
Bphy_1762
Single gene
DOOR ID:
2296792
Bphy_1762
View Structure
5
2302755-2302801
(-)
mini-ykkC
2302413-2302734 (-)
Bphy_2052
Bphy_2052
Single gene
DOOR ID:
2296898
Bphy_2052
View Structure
6
2488601-2488855
(-)
cobalamin
2486671-2488537 (-)
Bphy_2213
TonB-dependent receptor plug
Bphy_2213
Single gene
DOOR ID:
2296990
Bphy_2213
View Structure
7
2749724-2749838
(-)
ZMP-ZTP
2748291-2749539 (-)
glyA
Serine hydroxymethyltransferase (SHMT) (Serine methylase)
Bphy_2449
Operon
DOOR ID:
427264
Bphy_2448
(nrdR)
,
Bphy_2449
(glyA)
View Structure
8
2881958-2882026
(-)
SAH
2880406-2880865 (-)
Bphy_2559
D-aminoacyl-tRNA deacylase (DTD)
Bphy_2559
Operon
DOOR ID:
427289
Bphy_2558,
Bphy_2559,
Bphy_2560
View Structure
9
3123620-3123730
(-)
TPP
3122227-3123388 (-)
Bphy_2774
FAD dependent oxidoreductase
Bphy_2774
Operon
DOOR ID:
427337
Bphy_2767,
Bphy_2768,
Bphy_2769,
Bphy_2770,
Bphy_2771,
Bphy_2772
(thiG)
,
Bphy_2773,
Bphy_2774
View Structure
10
3275109-3275223
(-)
SAH
3273655-3275077 (-)
Bphy_2918
Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)
Bphy_2918
Operon
DOOR ID:
427362
Bphy_2916,
Bphy_2917,
Bphy_2918
View Structure
11
3367068-3367178
(+)
glycine
3367448-3368567 (+)
gcvT
Aminomethyltransferase (0) (Glycine cleavage system T protein)
Bphy_3003
Operon
DOOR ID:
427377
Bphy_3003
(gcvT)
,
Bphy_3004,
Bphy_3005
View Structure
12
3367227-3367365
(+)
glycine
3367448-3368567 (+)
gcvT
Aminomethyltransferase (0) (Glycine cleavage system T protein)
Bphy_3003
Operon
DOOR ID:
427377
Bphy_3003
(gcvT)
,
Bphy_3004,
Bphy_3005
View Structure
Genome:
Burkholderia phymatum STM815 chromosome I
(
NC_010622.1
);
Phylum:
Betaproteobacteria
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_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:13:"475837-476009";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:13:"476227-476962";i:10;s:1:"+";i:11;s:9:"Bphy_0417";i:12;s:65:"3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)";i:13;s:9:"Bphy_0417";i:14;s:11:"Single gene";i:15;s:7:"2296163";i:16;s:9:"Bphy_0417";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:13:"775564-775746";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:13:"774936-775509";i:10;s:1:"-";i:11;s:9:"Bphy_0688";i:12;s:0:"";i:13;s:9:"Bphy_0688";i:14;s:11:"Single gene";i:15;s:7:"2296299";i:16;s:9:"Bphy_0688";i:17;s:0:"";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"1711991-1712118";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"1712222-1714154";i:10;s:1:"+";i:11;s:9:"Bphy_1518";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:"Bphy_1518";i:14;s:11:"Single gene";i:15;s:7:"2296675";i:16;s:9:"Bphy_1518";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2012557-2012617";i:6;s:1:"+";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:15:"2012692-2013073";i:10;s:1:"+";i:11;s:9:"Bphy_1762";i:12;s:38:"Putative fluoride ion transporter CrcB";i:13;s:9:"Bphy_1762";i:14;s:11:"Single gene";i:15;s:7:"2296792";i:16;s:9:"Bphy_1762";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2302755-2302801";i:6;s:1:"-";i:7;s:9:"mini-ykkC";i:8;s:0:"";i:9;s:15:"2302413-2302734";i:10;s:1:"-";i:11;s:9:"Bphy_2052";i:12;s:0:"";i:13;s:9:"Bphy_2052";i:14;s:11:"Single gene";i:15;s:7:"2296898";i:16;s:9:"Bphy_2052";i:17;s:0:"";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2488601-2488855";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2486671-2488537";i:10;s:1:"-";i:11;s:9:"Bphy_2213";i:12;s:28:"TonB-dependent receptor plug";i:13;s:9:"Bphy_2213";i:14;s:11:"Single gene";i:15;s:7:"2296990";i:16;s:9:"Bphy_2213";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2749724-2749838";i:6;s:1:"-";i:7;s:7:"ZMP-ZTP";i:8;s:0:"";i:9;s:15:"2748291-2749539";i:10;s:1:"-";i:11;s:4:"glyA";i:12;s:58:"Serine hydroxymethyltransferase (SHMT) (Serine methylase) ";i:13;s:9:"Bphy_2449";i:14;s:6:"Operon";i:15;s:6:"427264";i:16;s:31:"Bphy_2448(nrdR);Bphy_2449(glyA)";i:17;s:100:"glycine biosynthetic process from serine [GO:0019264]; tetrahydrofolate interconversion [GO:0035999]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2881958-2882026";i:6;s:1:"-";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:15:"2880406-2880865";i:10;s:1:"-";i:11;s:9:"Bphy_2559";i:12;s:33:"D-aminoacyl-tRNA deacylase (DTD) ";i:13;s:9:"Bphy_2559";i:14;s:6:"Operon";i:15;s:6:"427289";i:16;s:29:"Bphy_2558;Bphy_2559;Bphy_2560";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"3123620-3123730";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"3122227-3123388";i:10;s:1:"-";i:11;s:9:"Bphy_2774";i:12;s:28:"FAD dependent oxidoreductase";i:13;s:9:"Bphy_2774";i:14;s:6:"Operon";i:15;s:6:"427337";i:16;s:85:"Bphy_2767;Bphy_2768;Bphy_2769;Bphy_2770;Bphy_2771;Bphy_2772(thiG);Bphy_2773;Bphy_2774";i:17;s:43:"D-amino acid metabolic process [GO:0046416]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"3275109-3275223";i:6;s:1:"-";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:15:"3273655-3275077";i:10;s:1:"-";i:11;s:9:"Bphy_2918";i:12;s:73:"Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)";i:13;s:9:"Bphy_2918";i:14;s:6:"Operon";i:15;s:6:"427362";i:16;s:29:"Bphy_2916;Bphy_2917;Bphy_2918";i:17;s:96:"one-carbon metabolic process [GO:0006730]; S-adenosylhomocysteine catabolic process [GO:0019510]";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"3367068-3367178";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"3367448-3368567";i:10;s:1:"+";i:11;s:4:"gcvT";i:12;s:62:"Aminomethyltransferase (0) (Glycine cleavage system T protein)";i:13;s:9:"Bphy_3003";i:14;s:6:"Operon";i:15;s:6:"427377";i:16;s:35:"Bphy_3003(gcvT);Bphy_3004;Bphy_3005";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_010622.1";i:2;s:41:"Burkholderia phymatum STM815 chromosome I";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"3367227-3367365";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"3367448-3368567";i:10;s:1:"+";i:11;s:4:"gcvT";i:12;s:62:"Aminomethyltransferase (0) (Glycine cleavage system T protein)";i:13;s:9:"Bphy_3003";i:14;s:6:"Operon";i:15;s:6:"427377";i:16;s:35:"Bphy_3003(gcvT);Bphy_3004;Bphy_3005";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}}
