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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
34842-34908
(+)
fluoride
35034-36414 (+)
VFMJ11_0031
Chloride channel protein
VFMJ11_0031
Single gene
DOOR ID:
2379514
VFMJ11_0031
View Structure
2
36713-36825
(+)
TPP
37013-38948 (+)
thiC
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
VFMJ11_0033
Operon
DOOR ID:
467235
VFMJ11_0033
(thiC)
,
VFMJ11_0034
(thiE_2)
,
VFMJ11_0035,
VFMJ11_0036
(thiS)
,
VFMJ11_0037
(thiG)
,
VFMJ11_0038
(thiH)
View Structure
3
259794-259906
(+)
TPP
259959-260976 (+)
tbpA
Thiamin/thiamin pyrophosphate ABC transporter; thiamin/thiamin pyrophospate-binding protein
VFMJ11_0255
Operon
DOOR ID:
467270
VFMJ11_0255
(tbpA)
,
VFMJ11_0256
(thiP)
,
VFMJ11_0257
(thiQ)
View Structure
4
353964-354138
(-)
lysine
352545-353898 (-)
VFMJ11_0329
Aspartokinase
VFMJ11_0329
Single gene
DOOR ID:
2379598
VFMJ11_0329
View Structure
5
1028357-1028505
(+)
MOCO
1029495-1029975 (+)
moaC
Cyclic pyranopterin monophosphate synthase (7) (Molybdenum cofactor biosynthesis protein C)
VFMJ11_0982
Operon
DOOR ID:
467385
VFMJ11_0981
(moaA)
,
VFMJ11_0982
(moaC)
,
VFMJ11_0983
(moaD)
,
VFMJ11_0984
(moaE)
View Structure
6
1633332-1633437
(+)
glycine
1633534-1634917 (+)
VFMJ11_1550
Sodium/alanine symporter
VFMJ11_1550
Single gene
DOOR ID:
2380380
VFMJ11_1550
View Structure
7
1780753-1780835
(+)
c-di-GMP-I
1780963-1781551 (+)
VFMJ11_1676
DNA transformation protein TfoX
VFMJ11_1676
single gene
DOOR ID:
2380207
VFMJ11_1676
View Structure
8
1859017-1859200
(-)
lysine
1857348-1858935 (-)
VFMJ11_1750
Na+/H+ antiporter family protein
VFMJ11_1750
Single gene
DOOR ID:
2380259
VFMJ11_1750
View Structure
9
2743570-2743795
(-)
cobalamin
2741676-2743524 (-)
VFMJ11_2559
Vitamin B12 transporter BtuB (Cobalamin receptor) (Outer membrane cobalamin translocator)
VFMJ11_2559
Operon
DOOR ID:
467659
VFMJ11_2557
(murI)
,
VFMJ11_2558,
VFMJ11_2559
View Structure
Genome:
Vibrio fischeri MJ11 chromosome I
(
NC_011184.1
);
Phylum:
Gammaproteobacteria
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thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_011184.1";i:2;s:33:"Vibrio fischeri MJ11 chromosome I";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"259794-259906";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:13:"259959-260976";i:10;s:1:"+";i:11;s:4:"tbpA";i:12;s:91:"Thiamin/thiamin pyrophosphate ABC transporter; thiamin/thiamin pyrophospate-binding protein";i:13;s:11:"VFMJ11_0255";i:14;s:6:"Operon";i:15;s:6:"467270";i:16;s:53:"VFMJ11_0255(tbpA);VFMJ11_0256(thiP);VFMJ11_0257(thiQ)";i:17;s:31:"thiamine transport [GO:0015888]";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_011184.1";i:2;s:33:"Vibrio fischeri MJ11 chromosome I";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"353964-354138";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:13:"352545-353898";i:10;s:1:"-";i:11;s:11:"VFMJ11_0329";i:12;s:14:"Aspartokinase ";i:13;s:11:"VFMJ11_0329";i:14;s:11:"Single gene";i:15;s:7:"2379598";i:16;s:11:"VFMJ11_0329";i:17;s:105:"lysine biosynthetic process via diaminopimelate [GO:0009089]; threonine biosynthetic process [GO:0009088]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_011184.1";i:2;s:33:"Vibrio fischeri MJ11 chromosome I";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1028357-1028505";i:6;s:1:"+";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:15:"1029495-1029975";i:10;s:1:"+";i:11;s:4:"moaC";i:12;s:91:"Cyclic pyranopterin monophosphate synthase (7) (Molybdenum cofactor biosynthesis protein C)";i:13;s:11:"VFMJ11_0982";i:14;s:6:"Operon";i:15;s:6:"467385";i:16;s:71:"VFMJ11_0981(moaA);VFMJ11_0982(moaC);VFMJ11_0983(moaD);VFMJ11_0984(moaE)";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_011184.1";i:2;s:33:"Vibrio fischeri MJ11 chromosome I";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1633332-1633437";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"1633534-1634917";i:10;s:1:"+";i:11;s:11:"VFMJ11_1550";i:12;s:24:"Sodium/alanine symporter";i:13;s:11:"VFMJ11_1550";i:14;s:11:"Single gene";i:15;s:7:"2380380";i:16;s:11:"VFMJ11_1550";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_011184.1";i:2;s:33:"Vibrio fischeri MJ11 chromosome I";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1780753-1780835";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"1780963-1781551";i:10;s:1:"+";i:11;s:11:"VFMJ11_1676";i:12;s:31:"DNA transformation protein TfoX";i:13;s:11:"VFMJ11_1676";i:14;s:11:"single gene";i:15;s:7:"2380207";i:16;s:11:"VFMJ11_1676";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_011184.1";i:2;s:33:"Vibrio fischeri MJ11 chromosome I";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1859017-1859200";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"1857348-1858935";i:10;s:1:"-";i:11;s:11:"VFMJ11_1750";i:12;s:32:"Na+/H+ antiporter family protein";i:13;s:11:"VFMJ11_1750";i:14;s:11:"Single gene";i:15;s:7:"2380259";i:16;s:11:"VFMJ11_1750";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_011184.1";i:2;s:33:"Vibrio fischeri MJ11 chromosome I";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2743570-2743795";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2741676-2743524";i:10;s:1:"-";i:11;s:11:"VFMJ11_2559";i:12;s:89:"Vitamin B12 transporter BtuB (Cobalamin receptor) (Outer membrane cobalamin translocator)";i:13;s:11:"VFMJ11_2559";i:14;s:6:"Operon";i:15;s:6:"467659";i:16;s:41:"VFMJ11_2557(murI);VFMJ11_2558;VFMJ11_2559";i:17;s:26:"ion transport [GO:0006811]";i:18;s:15:"View Structure ";}}
