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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
163356-163451
(-)
TPP
161095-163285 (-)
BurJV3_0145
TonB-dependent siderophore receptor
BurJV3_0145
Operon
DOOR ID:
1198195
BurJV3_0145,
BurJV3_0144
View Structure
2
241517-241746
(-)
cobalamin
240661-241348 (-)
BurJV3_0214
Epoxyqueuosine reductase QueH (Queuosine biosynthesis protein QueH)
BurJV3_0214
Operon
DOOR ID:
1198209
BurJV3_0214,
BurJV3_0213
View Structure
3
534834-535057
(-)
cobalamin
532877-534719 (-)
BurJV3_0480
TonB-dependent vitamin B12 receptor
BurJV3_0480
Single gene
DOOR ID:
3252220
BurJV3_0480
View Structure
4
678594-678739
(+)
FMN
678813-679440 (+)
BurJV3_0595
Riboflavin synthase; alpha subunit
BurJV3_0595
Operon
DOOR ID:
1198291
BurJV3_0595,
BurJV3_0596
View Structure
5
733170-733253
(-)
SAH
731687-733133 (-)
BurJV3_0641
Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)
BurJV3_0641
Single gene
DOOR ID:
3252273
BurJV3_0641
View Structure
6
1585471-1585534
(-)
fluoride
1584996-1585389 (-)
BurJV3_1411
Putative fluoride ion transporter CrcB
BurJV3_1411
Single gene
DOOR ID:
3252547
BurJV3_1411
View Structure
7
3337252-3337354
(+)
glycine
3337416-3340284 (+)
BurJV3_3030
Glycine dehydrogenase (decarboxylating) (Glycine cleavage system P-protein) (Glycine decarboxylase) (Glycine dehydrogenase (aminomethyl-transferring))
BurJV3_3030
Single gene
DOOR ID:
3253102
BurJV3_3030
View Structure
8
3397821-3397939
(-)
SAM
3396711-3397743 (-)
BurJV3_3079
Homoserine O-acetyltransferase (1)
BurJV3_3079
Operon
DOOR ID:
1198808
BurJV3_3077,
BurJV3_3078,
BurJV3_3079
View Structure
9
3721547-3721648
(-)
TPP
3719619-3721464 (-)
BurJV3_3359
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
BurJV3_3359
Single gene
DOOR ID:
3253235
BurJV3_3359
View Structure
10
4043204-4043293
(+)
glycine
4043494-4044112 (+)
BurJV3_3652
BurJV3_3652
Single gene
DOOR ID:
3253372
BurJV3_3652
View Structure
11
4043307-4043410
(+)
glycine
4043494-4044112 (+)
BurJV3_3652
BurJV3_3652
Single gene
DOOR ID:
3253372
BurJV3_3652
View Structure
12
4445347-4445436
(+)
yybP-ykoY
4445524-4446100 (+)
BurJV3_4020
Putative manganese efflux pump MntP
BurJV3_4020
Single gene
DOOR ID:
3253526
BurJV3_4020
View Structure
13
4538902-4538977
(-)
SAH
4536704-4537811 (-)
BurJV3_4082
Glycerophosphoryl diester phosphodiesterase
BurJV3_4082
Single gene
DOOR ID:
3253547
BurJV3_4082
View Structure
Genome:
Stenotrophomonas maltophilia JV3
(
NC_015947.1
);
Phylum:
Gammaproteobacteria
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tRNA processing [GO:0008033]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"534834-535057";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"532877-534719";i:10;s:1:"-";i:11;s:11:"BurJV3_0480";i:12;s:35:"TonB-dependent vitamin B12 receptor";i:13;s:11:"BurJV3_0480";i:14;s:11:"Single gene";i:15;s:7:"3252220";i:16;s:11:"BurJV3_0480";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"678594-678739";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:13:"678813-679440";i:10;s:1:"+";i:11;s:11:"BurJV3_0595";i:12;s:35:"Riboflavin synthase; alpha subunit ";i:13;s:11:"BurJV3_0595";i:14;s:6:"Operon";i:15;s:7:"1198291";i:16;s:23:"BurJV3_0595;BurJV3_0596";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"733170-733253";i:6;s:1:"-";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:13:"731687-733133";i:10;s:1:"-";i:11;s:11:"BurJV3_0641";i:12;s:73:"Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)";i:13;s:11:"BurJV3_0641";i:14;s:11:"Single gene";i:15;s:7:"3252273";i:16;s:11:"BurJV3_0641";i:17;s:96:"one-carbon metabolic process [GO:0006730]; S-adenosylhomocysteine catabolic process [GO:0019510]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1585471-1585534";i:6;s:1:"-";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:15:"1584996-1585389";i:10;s:1:"-";i:11;s:11:"BurJV3_1411";i:12;s:38:"Putative fluoride ion transporter CrcB";i:13;s:11:"BurJV3_1411";i:14;s:11:"Single gene";i:15;s:7:"3252547";i:16;s:11:"BurJV3_1411";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3337252-3337354";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"3337416-3340284";i:10;s:1:"+";i:11;s:11:"BurJV3_3030";i:12;s:151:"Glycine dehydrogenase (decarboxylating) (Glycine cleavage system P-protein) (Glycine decarboxylase) (Glycine dehydrogenase (aminomethyl-transferring))";i:13;s:11:"BurJV3_3030";i:14;s:11:"Single gene";i:15;s:7:"3253102";i:16;s:11:"BurJV3_3030";i:17;s:64:"glycine decarboxylation via glycine cleavage system [GO:0019464]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3397821-3397939";i:6;s:1:"-";i:7;s:3:"SAM";i:8;s:0:"";i:9;s:15:"3396711-3397743";i:10;s:1:"-";i:11;s:11:"BurJV3_3079";i:12;s:34:"Homoserine O-acetyltransferase (1)";i:13;s:11:"BurJV3_3079";i:14;s:6:"Operon";i:15;s:7:"1198808";i:16;s:35:"BurJV3_3077;BurJV3_3078;BurJV3_3079";i:17;s:53:"cellular amino acid biosynthetic process [GO:0008652]";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3721547-3721648";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"3719619-3721464";i:10;s:1:"-";i:11;s:11:"BurJV3_3359";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:"BurJV3_3359";i:14;s:11:"Single gene";i:15;s:7:"3253235";i:16;s:11:"BurJV3_3359";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4043204-4043293";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"4043494-4044112";i:10;s:1:"+";i:11;s:11:"BurJV3_3652";i:12;s:0:"";i:13;s:11:"BurJV3_3652";i:14;s:11:"Single gene";i:15;s:7:"3253372";i:16;s:11:"BurJV3_3652";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4043307-4043410";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"4043494-4044112";i:10;s:1:"+";i:11;s:11:"BurJV3_3652";i:12;s:0:"";i:13;s:11:"BurJV3_3652";i:14;s:11:"Single gene";i:15;s:7:"3253372";i:16;s:11:"BurJV3_3652";i:17;s:0:"";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4445347-4445436";i:6;s:1:"+";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"4445524-4446100";i:10;s:1:"+";i:11;s:11:"BurJV3_4020";i:12;s:35:"Putative manganese efflux pump MntP";i:13;s:11:"BurJV3_4020";i:14;s:11:"Single gene";i:15;s:7:"3253526";i:16;s:11:"BurJV3_4020";i:17;s:0:"";i:18;s:15:"View Structure ";}i:13;a:19:{i:0;i:13;i:1;s:11:"NC_015947.1";i:2;s:33:"Stenotrophomonas maltophilia JV3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4538902-4538977";i:6;s:1:"-";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:15:"4536704-4537811";i:10;s:1:"-";i:11;s:11:"BurJV3_4082";i:12;s:43:"Glycerophosphoryl diester phosphodiesterase";i:13;s:11:"BurJV3_4082";i:14;s:11:"Single gene";i:15;s:7:"3253547";i:16;s:11:"BurJV3_4082";i:17;s:36:"lipid metabolic process [GO:0006629]";i:18;s:15:"View Structure ";}}
