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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
261296-261422
(+)
SAH
261449-264206 (+)
Daci_0232
Methionine synthase (3) (5-methyltetrahydrofolate--homocysteine methyltransferase)
Daci_0232
Single gene
DOOR ID:
2173539
Daci_0232
View Structure
2
570709-570819
(-)
glycine
569284-570616 (-)
Daci_0528
D-amino-acid dehydrogenase
Daci_0528
Single gene
DOOR ID:
2173628
Daci_0528
View Structure
3
1926446-1926512
(-)
fluoride
1925072-1926368 (-)
Daci_1732
Chloride channel core
Daci_1732
Operon
DOOR ID:
1179487
Daci_1731,
Daci_1732
View Structure
4
2410016-2410184
(+)
FMN
2410293-2410836 (+)
Daci_2196
6;7-dimethyl-8-ribityllumazine synthase (DMRL synthase) (LS) (Lumazine synthase) (8)
Daci_2196
Single gene
DOOR ID:
2174244
Daci_2196
View Structure
5
2543539-2543664
(+)
TPP
2543929-2545873 (+)
Daci_2313
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Daci_2313
Single gene
DOOR ID:
2174291
Daci_2313
View Structure
6
3611069-3611261
(-)
TPP
3609857-3611054 (-)
Daci_3293
FAD dependent oxidoreductase
Daci_3293
Single gene
DOOR ID:
2174629
Daci_3293
View Structure
7
3908908-3908971
(+)
fluoride
3909052-3909439 (+)
Daci_3560
Putative fluoride ion transporter CrcB
Daci_3560
Single gene
DOOR ID:
2174742
Daci_3560
View Structure
8
4023571-4023666
(-)
c-di-GMP-I
4021102-4023496 (-)
Daci_3662
Ig family protein
Daci_3662
single gene
DOOR ID:
2174787
Daci_3662
View Structure
9
4099682-4099909
(-)
cobalamin
4097698-4099612 (-)
Daci_3730
TonB-dependent receptor
Daci_3730
Operon
DOOR ID:
1179898
Daci_3729,
Daci_3730
View Structure
10
4174763-4175082
(-)
cobalamin
4172479-4174642 (-)
Daci_3793
TonB-dependent siderophore receptor
Daci_3793
Operon
DOOR ID:
1179911
Daci_3789,
Daci_3790,
Daci_3791,
Daci_3792,
Daci_3793
View Structure
11
4731995-4732106
(+)
glycine
4732257-4733433 (+)
Daci_4326
Glycine cleavage system T protein
Daci_4326
Single gene
DOOR ID:
2175035
Daci_4326
View Structure
12
4732122-4732240
(+)
glycine
4732257-4733433 (+)
Daci_4326
Glycine cleavage system T protein
Daci_4326
Single gene
DOOR ID:
2175035
Daci_4326
View Structure
13
4814900-4815073
(+)
yybP-ykoY
4815824-4816232 (+)
Daci_4398
PRC-barrel domain protein
Daci_4398
Single gene
DOOR ID:
2175069
Daci_4398
View Structure
14
4982403-4982494
(-)
TPP
4981216-4982335 (-)
Daci_4530
Putative acyl protein synthase/acyl-CoA reductase-like protein
Daci_4530
Operon
DOOR ID:
1180061
Daci_4525,
Daci_4526,
Daci_4527,
Daci_4528,
Daci_4529,
Daci_4530
View Structure
15
5485368-5485543
(+)
ZMP-ZTP
5485577-5486825 (+)
Daci_4955
Serine hydroxymethyltransferase (SHMT) (Serine methylase)
Daci_4955
Operon
DOOR ID:
1180145
Daci_4955,
Daci_4956
(nrdR)
View Structure
16
6407894-6408175
(-)
cobalamin
6405525-6407766 (-)
Daci_5752
TonB-dependent receptor
Daci_5752
Operon
DOOR ID:
1180315
Daci_5748,
Daci_5749,
Daci_5750,
Daci_5751,
Daci_5752
View Structure
17
6586470-6586554
(-)
SAH
6584968-6586399 (-)
Daci_5919
Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)
Daci_5919
Single gene
DOOR ID:
2175589
Daci_5919
View Structure
18
6755847-6756026
(-)
yybP-ykoY
6753985-6755134 (-)
metX
Homoserine O-succinyltransferase (HST) (6) (Homoserine transsuccinylase) (HTS)
Daci_6044
Operon
DOOR ID:
1180382
Daci_6042,
Daci_6043,
Daci_6044
(metX)
View Structure
Genome:
Delftia acidovorans SPH-1
(
NC_010002.1
);
Phylum:
Betaproteobacteria
a:19:{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_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:13:"261296-261422";i:6;s:1:"+";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:13:"261449-264206";i:10;s:1:"+";i:11;s:9:"Daci_0232";i:12;s:82:"Methionine synthase (3) (5-methyltetrahydrofolate--homocysteine methyltransferase)";i:13;s:9:"Daci_0232";i:14;s:11:"Single gene";i:15;s:7:"2173539";i:16;s:9:"Daci_0232";i:17;s:60:"pteridine-containing compound metabolic process [GO:0042558]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:13:"570709-570819";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:13:"569284-570616";i:10;s:1:"-";i:11;s:9:"Daci_0528";i:12;s:27:"D-amino-acid dehydrogenase ";i:13;s:9:"Daci_0528";i:14;s:11:"Single gene";i:15;s:7:"2173628";i:16;s:9:"Daci_0528";i:17;s:0:"";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"1926446-1926512";i:6;s:1:"-";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:15:"1925072-1926368";i:10;s:1:"-";i:11;s:9:"Daci_1732";i:12;s:21:"Chloride channel core";i:13;s:9:"Daci_1732";i:14;s:6:"Operon";i:15;s:7:"1179487";i:16;s:19:"Daci_1731;Daci_1732";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2410016-2410184";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"2410293-2410836";i:10;s:1:"+";i:11;s:9:"Daci_2196";i:12;s:84:"6;7-dimethyl-8-ribityllumazine synthase (DMRL synthase) (LS) (Lumazine synthase) (8)";i:13;s:9:"Daci_2196";i:14;s:11:"Single gene";i:15;s:7:"2174244";i:16;s:9:"Daci_2196";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2543539-2543664";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2543929-2545873";i:10;s:1:"+";i:11;s:9:"Daci_2313";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:"Daci_2313";i:14;s:11:"Single gene";i:15;s:7:"2174291";i:16;s:9:"Daci_2313";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_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"3611069-3611261";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"3609857-3611054";i:10;s:1:"-";i:11;s:9:"Daci_3293";i:12;s:28:"FAD dependent oxidoreductase";i:13;s:9:"Daci_3293";i:14;s:11:"Single gene";i:15;s:7:"2174629";i:16;s:9:"Daci_3293";i:17;s:43:"D-amino acid metabolic process [GO:0046416]";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"3908908-3908971";i:6;s:1:"+";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:15:"3909052-3909439";i:10;s:1:"+";i:11;s:9:"Daci_3560";i:12;s:38:"Putative fluoride ion transporter CrcB";i:13;s:9:"Daci_3560";i:14;s:11:"Single gene";i:15;s:7:"2174742";i:16;s:9:"Daci_3560";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"4023571-4023666";i:6;s:1:"-";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"4021102-4023496";i:10;s:1:"-";i:11;s:9:"Daci_3662";i:12;s:17:"Ig family protein";i:13;s:9:"Daci_3662";i:14;s:11:"single gene";i:15;s:7:"2174787";i:16;s:9:"Daci_3662";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"4099682-4099909";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4097698-4099612";i:10;s:1:"-";i:11;s:9:"Daci_3730";i:12;s:23:"TonB-dependent receptor";i:13;s:9:"Daci_3730";i:14;s:6:"Operon";i:15;s:7:"1179898";i:16;s:19:"Daci_3729;Daci_3730";i:17;s:0:"";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"4174763-4175082";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4172479-4174642";i:10;s:1:"-";i:11;s:9:"Daci_3793";i:12;s:35:"TonB-dependent siderophore receptor";i:13;s:9:"Daci_3793";i:14;s:6:"Operon";i:15;s:7:"1179911";i:16;s:49:"Daci_3789;Daci_3790;Daci_3791;Daci_3792;Daci_3793";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"4731995-4732106";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"4732257-4733433";i:10;s:1:"+";i:11;s:9:"Daci_4326";i:12;s:33:"Glycine cleavage system T protein";i:13;s:9:"Daci_4326";i:14;s:11:"Single gene";i:15;s:7:"2175035";i:16;s:9:"Daci_4326";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_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"4732122-4732240";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"4732257-4733433";i:10;s:1:"+";i:11;s:9:"Daci_4326";i:12;s:33:"Glycine cleavage system T protein";i:13;s:9:"Daci_4326";i:14;s:11:"Single gene";i:15;s:7:"2175035";i:16;s:9:"Daci_4326";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:13;a:19:{i:0;i:13;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"4814900-4815073";i:6;s:1:"+";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"4815824-4816232";i:10;s:1:"+";i:11;s:9:"Daci_4398";i:12;s:25:"PRC-barrel domain protein";i:13;s:9:"Daci_4398";i:14;s:11:"Single gene";i:15;s:7:"2175069";i:16;s:9:"Daci_4398";i:17;s:0:"";i:18;s:15:"View Structure ";}i:14;a:19:{i:0;i:14;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"4982403-4982494";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"4981216-4982335";i:10;s:1:"-";i:11;s:9:"Daci_4530";i:12;s:62:"Putative acyl protein synthase/acyl-CoA reductase-like protein";i:13;s:9:"Daci_4530";i:14;s:6:"Operon";i:15;s:7:"1180061";i:16;s:59:"Daci_4525;Daci_4526;Daci_4527;Daci_4528;Daci_4529;Daci_4530";i:17;s:28:"bioluminescence [GO:0008218]";i:18;s:15:"View Structure ";}i:15;a:19:{i:0;i:15;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"5485368-5485543";i:6;s:1:"+";i:7;s:7:"ZMP-ZTP";i:8;s:0:"";i:9;s:15:"5485577-5486825";i:10;s:1:"+";i:11;s:9:"Daci_4955";i:12;s:58:"Serine hydroxymethyltransferase (SHMT) (Serine methylase) ";i:13;s:9:"Daci_4955";i:14;s:6:"Operon";i:15;s:7:"1180145";i:16;s:25:"Daci_4955;Daci_4956(nrdR)";i:17;s:100:"glycine biosynthetic process from serine [GO:0019264]; tetrahydrofolate interconversion [GO:0035999]";i:18;s:15:"View Structure ";}i:16;a:19:{i:0;i:16;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"6407894-6408175";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"6405525-6407766";i:10;s:1:"-";i:11;s:9:"Daci_5752";i:12;s:23:"TonB-dependent receptor";i:13;s:9:"Daci_5752";i:14;s:6:"Operon";i:15;s:7:"1180315";i:16;s:49:"Daci_5748;Daci_5749;Daci_5750;Daci_5751;Daci_5752";i:17;s:0:"";i:18;s:15:"View Structure ";}i:17;a:19:{i:0;i:17;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"6586470-6586554";i:6;s:1:"-";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:15:"6584968-6586399";i:10;s:1:"-";i:11;s:9:"Daci_5919";i:12;s:73:"Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)";i:13;s:9:"Daci_5919";i:14;s:11:"Single gene";i:15;s:7:"2175589";i:16;s:9:"Daci_5919";i:17;s:96:"one-carbon metabolic process [GO:0006730]; S-adenosylhomocysteine catabolic process [GO:0019510]";i:18;s:15:"View Structure ";}i:18;a:19:{i:0;i:18;i:1;s:11:"NC_010002.1";i:2;s:26:"Delftia acidovorans SPH-1 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"6755847-6756026";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"6753985-6755134";i:10;s:1:"-";i:11;s:4:"metX";i:12;s:78:"Homoserine O-succinyltransferase (HST) (6) (Homoserine transsuccinylase) (HTS)";i:13;s:9:"Daci_6044";i:14;s:6:"Operon";i:15;s:7:"1180382";i:16;s:35:"Daci_6042;Daci_6043;Daci_6044(metX)";i:17;s:44:"methionine biosynthetic process [GO:0009086]";i:18;s:15:"View Structure ";}}
