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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
583753-583892
(+)
MOCO
584929-585442 (+)
moaB
Molybdenum cofactor biosynthesis protein B
VC0395_A0545
Operon
DOOR ID:
304486
VC0395_A0544
(moaA)
,
VC0395_A0545
(moaB)
,
VC0395_A0546
(moaC)
,
VC0395_A0547
(moaD)
,
VC0395_A0548
(moaE)
View Structure
2
723573-723755
(+)
lysine
723870-725472 (+)
VC0395_A0701
Putative membrane protein
VC0395_A0701
Single gene
DOOR ID:
2037872
VC0395_A0701
View Structure
3
933363-933473
(+)
TPP
933532-934381 (+)
thiD
Phosphomethylpyrimidine kinase
VC0395_A0914
Single gene
DOOR ID:
2038540
VC0395_A0914
(thiD)
View Structure
4
1043227-1043274
(+)
mini-ykkC
1043290-1043605 (+)
sugE
VC0395_A1005
Single gene
DOOR ID:
2038255
VC0395_A1005
(sugE)
View Structure
5
1078841-1078940
(-)
glycine
1077377-1078748 (-)
VC0395_A1032
Sodium/alanine symporter
VC0395_A1032
Single gene
DOOR ID:
2037972
VC0395_A1032
View Structure
6
1339128-1339297
(+)
ykoK
1339396-1340752 (+)
mgtE-1
Magnesium transporter
VC0395_A1260
Single gene
DOOR ID:
2037956
VC0395_A1260
(mgtE-1)
View Structure
7
1413802-1413888
(+)
c-di-GMP-I
1414001-1414589 (+)
VC0395_A1325
Uncharacterized protein
VC0395_A1325
single gene
DOOR ID:
2038562
VC0395_A1325
View Structure
8
2275570-2275707
(-)
TPP
2274513-2275506 (-)
tbpA
Thiamine ABC transporter; periplasmic thiamin-binding protein
VC0395_A2119
Operon
DOOR ID:
304770
VC0395_A2117,
VC0395_A2118
(thiP)
,
VC0395_A2119
(tbpA)
View Structure
9
2498360-2498584
(-)
cobalamin
2496480-2498316 (-)
VC0395_A2342
Vitamin B12 transporter BtuB (Cobalamin receptor) (Outer membrane cobalamin translocator)
VC0395_A2342
Single gene
DOOR ID:
2038310
VC0395_A2342
View Structure
10
2609391-2609489
(-)
TPP
2607352-2609290 (-)
thiC
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
VC0395_A2452
Operon
DOOR ID:
304831
VC0395_A2450
(thiF)
,
VC0395_A2451
(thiE)
,
VC0395_A2452
(thiC)
View Structure
11
2649137-2649246
(-)
yybP-ykoY
2648489-2649092 (-)
VC0395_A2497
Putative manganese exporter (Manganese exporter A)
VC0395_A2497
Single gene
DOOR ID:
2038094
VC0395_A2497
View Structure
12
2956342-2956519
(-)
lysine
2954875-2956231 (-)
lysC
Aspartokinase
VC0395_A2809
Single gene
DOOR ID:
2038675
VC0395_A2809
(lysC)
View Structure
Genome:
Vibrio cholerae O395 chromosome II
(
NC_009457.1
);
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_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"583753-583892";i:6;s:1:"+";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:13:"584929-585442";i:10;s:1:"+";i:11;s:4:"moaB";i:12;s:42:"Molybdenum cofactor biosynthesis protein B";i:13;s:12:"VC0395_A0545";i:14;s:6:"Operon";i:15;s:6:"304486";i:16;s:94:"VC0395_A0544(moaA);VC0395_A0545(moaB);VC0395_A0546(moaC);VC0395_A0547(moaD);VC0395_A0548(moaE)";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"723573-723755";i:6;s:1:"+";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:13:"723870-725472";i:10;s:1:"+";i:11;s:12:"VC0395_A0701";i:12;s:25:"Putative membrane protein";i:13;s:12:"VC0395_A0701";i:14;s:11:"Single gene";i:15;s:7:"2037872";i:16;s:12:"VC0395_A0701";i:17;s:0:"";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"933363-933473";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:13:"933532-934381";i:10;s:1:"+";i:11;s:4:"thiD";i:12;s:31:"Phosphomethylpyrimidine kinase ";i:13;s:12:"VC0395_A0914";i:14;s:11:"Single gene";i:15;s:7:"2038540";i:16;s:18:"VC0395_A0914(thiD)";i:17;s:42:"thiamine biosynthetic process [GO:0009228]";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1043227-1043274";i:6;s:1:"+";i:7;s:9:"mini-ykkC";i:8;s:0:"";i:9;s:15:"1043290-1043605";i:10;s:1:"+";i:11;s:4:"sugE";i:12;s:0:"";i:13;s:12:"VC0395_A1005";i:14;s:11:"Single gene";i:15;s:7:"2038255";i:16;s:18:"VC0395_A1005(sugE)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1078841-1078940";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"1077377-1078748";i:10;s:1:"-";i:11;s:12:"VC0395_A1032";i:12;s:24:"Sodium/alanine symporter";i:13;s:12:"VC0395_A1032";i:14;s:11:"Single gene";i:15;s:7:"2037972";i:16;s:12:"VC0395_A1032";i:17;s:0:"";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1339128-1339297";i:6;s:1:"+";i:7;s:4:"ykoK";i:8;s:0:"";i:9;s:15:"1339396-1340752";i:10;s:1:"+";i:11;s:6:"mgtE-1";i:12;s:21:"Magnesium transporter";i:13;s:12:"VC0395_A1260";i:14;s:11:"Single gene";i:15;s:7:"2037956";i:16;s:20:"VC0395_A1260(mgtE-1)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1413802-1413888";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"1414001-1414589";i:10;s:1:"+";i:11;s:12:"VC0395_A1325";i:12;s:23:"Uncharacterized protein";i:13;s:12:"VC0395_A1325";i:14;s:11:"single gene";i:15;s:7:"2038562";i:16;s:12:"VC0395_A1325";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2275570-2275707";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2274513-2275506";i:10;s:1:"-";i:11;s:4:"tbpA";i:12;s:61:"Thiamine ABC transporter; periplasmic thiamin-binding protein";i:13;s:12:"VC0395_A2119";i:14;s:6:"Operon";i:15;s:6:"304770";i:16;s:50:"VC0395_A2117;VC0395_A2118(thiP);VC0395_A2119(tbpA)";i:17;s:31:"thiamine transport [GO:0015888]";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2498360-2498584";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2496480-2498316";i:10;s:1:"-";i:11;s:12:"VC0395_A2342";i:12;s:89:"Vitamin B12 transporter BtuB (Cobalamin receptor) (Outer membrane cobalamin translocator)";i:13;s:12:"VC0395_A2342";i:14;s:11:"Single gene";i:15;s:7:"2038310";i:16;s:12:"VC0395_A2342";i:17;s:26:"ion transport [GO:0006811]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2609391-2609489";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2607352-2609290";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:12:"VC0395_A2452";i:14;s:6:"Operon";i:15;s:6:"304831";i:16;s:56:"VC0395_A2450(thiF);VC0395_A2451(thiE);VC0395_A2452(thiC)";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2649137-2649246";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"2648489-2649092";i:10;s:1:"-";i:11;s:12:"VC0395_A2497";i:12;s:50:"Putative manganese exporter (Manganese exporter A)";i:13;s:12:"VC0395_A2497";i:14;s:11:"Single gene";i:15;s:7:"2038094";i:16;s:12:"VC0395_A2497";i:17;s:26:"ion transport [GO:0006811]";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_009457.1";i:2;s:34:"Vibrio cholerae O395 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2956342-2956519";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"2954875-2956231";i:10;s:1:"-";i:11;s:4:"lysC";i:12;s:14:"Aspartokinase ";i:13;s:12:"VC0395_A2809";i:14;s:11:"Single gene";i:15;s:7:"2038675";i:16;s:18:"VC0395_A2809(lysC)";i:17;s:105:"lysine biosynthetic process via diaminopimelate [GO:0009089]; threonine biosynthetic process [GO:0009088]";i:18;s:15:"View Structure ";}}
