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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
50120-50227
(+)
TPP
50258-52157 (+)
thiC
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
NE0038
Operon
DOOR ID:
84165
NE0038
(thiC)
,
NE0039
(bacA)
View Structure
2
660109-660207
(+)
glycine
660303-661395 (+)
gcvT
Aminomethyltransferase (0) (Glycine cleavage system T protein)
NE0607
Operon
DOOR ID:
84279
NE0607
(gcvT)
,
NE0608
(gcvH1)
View Structure
3
696577-696804
(-)
cobalamin
694615-696454 (-)
NE0636
TonB-dependent receptor protein
NE0636
Operon
DOOR ID:
84285
NE0634
(cobO)
,
NE0635,
NE0636
View Structure
4
715035-715112
(+)
SAH
715128-716565 (+)
ahcY
Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)
NE0660
Single gene
DOOR ID:
1567924
NE0660
(ahcY)
View Structure
5
1707540-1707622
(+)
c-di-GMP-I
1707700-1709830 (+)
NE1574
Serine proteases; subtilase family
NE1574
single gene
DOOR ID:
1568233
NE1574
View Structure
6
1756266-1756341
(+)
fluoride
1756637-1758497 (+)
NE1625
Ribonuclease II domain
NE1625
Operon
DOOR ID:
84511
NE1625,
NE1626
View Structure
7
1838902-1838968
(-)
fluoride
1838453-1838837 (-)
ccrB
Putative fluoride ion transporter CrcB
NE1704
Operon
DOOR ID:
84528
NE1703,
NE1704
(ccrB)
View Structure
8
2389307-2389357
(-)
mini-ykkC
2388971-2389286 (-)
NE2198
NE2198
Single gene
DOOR ID:
1568438
NE2198
View Structure
9
2634101-2634203
(-)
ykkC-yxkD
2632314-2633832 (-)
NE2419
Amino acid permease
NE2419
Operon
DOOR ID:
84687
NE2416,
NE2417,
NE2418,
NE2419
View Structure
10
2634421-2634524
(+)
ykkC-yxkD
2634782-2638418 (+)
NE2420
Biotin / Lipoyl attachment:Carbamoyl-phosphate synthase:DUF183
NE2420
Single gene
DOOR ID:
1568501
NE2420
View Structure
11
2722601-2722773
(-)
yybP-ykoY
2722017-2722596 (-)
NE2493
NE2493
Single gene
DOOR ID:
1568527
NE2493
View Structure
Genome:
Nitrosomonas europaea ATCC 19718
(
NC_004757.1
);
Phylum:
Betaproteobacteria
a:12:{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_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:11:"50120-50227";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:11:"50258-52157";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:6:"NE0038";i:14;s:6:"Operon";i:15;s:5:"84165";i:16;s:25:"NE0038(thiC);NE0039(bacA)";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:13:"660109-660207";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:13:"660303-661395";i:10;s:1:"+";i:11;s:4:"gcvT";i:12;s:62:"Aminomethyltransferase (0) (Glycine cleavage system T protein)";i:13;s:6:"NE0607";i:14;s:6:"Operon";i:15;s:5:"84279";i:16;s:26:"NE0607(gcvT);NE0608(gcvH1)";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:13:"696577-696804";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"694615-696454";i:10;s:1:"-";i:11;s:6:"NE0636";i:12;s:31:"TonB-dependent receptor protein";i:13;s:6:"NE0636";i:14;s:6:"Operon";i:15;s:5:"84285";i:16;s:26:"NE0634(cobO);NE0635;NE0636";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:13:"715035-715112";i:6;s:1:"+";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:13:"715128-716565";i:10;s:1:"+";i:11;s:4:"ahcY";i:12;s:73:"Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)";i:13;s:6:"NE0660";i:14;s:11:"Single gene";i:15;s:7:"1567924";i:16;s:12:"NE0660(ahcY)";i:17;s:96:"one-carbon metabolic process [GO:0006730]; S-adenosylhomocysteine catabolic process [GO:0019510]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"1707540-1707622";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"1707700-1709830";i:10;s:1:"+";i:11;s:6:"NE1574";i:12;s:34:"Serine proteases; subtilase family";i:13;s:6:"NE1574";i:14;s:11:"single gene";i:15;s:7:"1568233";i:16;s:6:"NE1574";i:17;s:0:"";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"1756266-1756341";i:6;s:1:"+";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:15:"1756637-1758497";i:10;s:1:"+";i:11;s:6:"NE1625";i:12;s:22:"Ribonuclease II domain";i:13;s:6:"NE1625";i:14;s:6:"Operon";i:15;s:5:"84511";i:16;s:13:"NE1625;NE1626";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"1838902-1838968";i:6;s:1:"-";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:15:"1838453-1838837";i:10;s:1:"-";i:11;s:4:"ccrB";i:12;s:38:"Putative fluoride ion transporter CrcB";i:13;s:6:"NE1704";i:14;s:6:"Operon";i:15;s:5:"84528";i:16;s:19:"NE1703;NE1704(ccrB)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2389307-2389357";i:6;s:1:"-";i:7;s:9:"mini-ykkC";i:8;s:0:"";i:9;s:15:"2388971-2389286";i:10;s:1:"-";i:11;s:6:"NE2198";i:12;s:0:"";i:13;s:6:"NE2198";i:14;s:11:"Single gene";i:15;s:7:"1568438";i:16;s:6:"NE2198";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2634101-2634203";i:6;s:1:"-";i:7;s:9:"ykkC-yxkD";i:8;s:0:"";i:9;s:15:"2632314-2633832";i:10;s:1:"-";i:11;s:6:"NE2419";i:12;s:19:"Amino acid permease";i:13;s:6:"NE2419";i:14;s:6:"Operon";i:15;s:5:"84687";i:16;s:27:"NE2416;NE2417;NE2418;NE2419";i:17;s:0:"";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2634421-2634524";i:6;s:1:"+";i:7;s:9:"ykkC-yxkD";i:8;s:0:"";i:9;s:15:"2634782-2638418";i:10;s:1:"+";i:11;s:6:"NE2420";i:12;s:62:"Biotin / Lipoyl attachment:Carbamoyl-phosphate synthase:DUF183";i:13;s:6:"NE2420";i:14;s:11:"Single gene";i:15;s:7:"1568501";i:16;s:6:"NE2420";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_004757.1";i:2;s:33:"Nitrosomonas europaea ATCC 19718 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2722601-2722773";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"2722017-2722596";i:10;s:1:"-";i:11;s:6:"NE2493";i:12;s:0:"";i:13;s:6:"NE2493";i:14;s:11:"Single gene";i:15;s:7:"1568527";i:16;s:6:"NE2493";i:17;s:0:"";i:18;s:15:"View Structure ";}}
