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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
146483-146744
(-)
FMN
145677-146316 (-)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
Spea_0131
Single gene
DOOR ID:
2146270
Spea_0131
(ribB)
View Structure
2
791651-791779
(-)
yybP-ykoY
791002-791557 (-)
Spea_0640
Spea_0640
Single gene
DOOR ID:
2146515
Spea_0640
View Structure
3
879639-879784
(+)
glycine
879988-881359 (+)
Spea_0715
Amino acid carrier protein
Spea_0715
Single gene
DOOR ID:
2146554
Spea_0715
View Structure
4
912567-912749
(+)
lysine
912894-914265 (+)
Spea_0735
Aspartokinase
Spea_0735
Operon
DOOR ID:
359371
Spea_0735,
Spea_0736
View Structure
5
2226508-2226638
(+)
TPP
2226690-2228829 (+)
Spea_1828
TonB-dependent receptor
Spea_1828
Single gene
DOOR ID:
2147155
Spea_1828
View Structure
6
2907051-2907149
(-)
TPP
2904900-2906904 (-)
Spea_2383
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Spea_2383
Operon
DOOR ID:
359647
Spea_2378
(thiH)
,
Spea_2379,
Spea_2380,
Spea_2381,
Spea_2382,
Spea_2383
View Structure
7
3485105-3485326
(-)
lysine
3483445-3485026 (-)
Spea_2853
Na+/H+ antiporter NhaC
Spea_2853
Single gene
DOOR ID:
2147681
Spea_2853
View Structure
8
3932305-3932527
(-)
cobalamin
3930328-3932182 (-)
Spea_3206
TonB-dependent receptor plug
Spea_3206
Single gene
DOOR ID:
2147877
Spea_3206
View Structure
9
3998279-3998452
(-)
lysine
3996612-3998196 (-)
Spea_3259
Na+/H+ antiporter NhaC
Spea_3259
Single gene
DOOR ID:
2147920
Spea_3259
View Structure
10
4131260-4131412
(-)
cobalamin
4130214-4131141 (-)
Spea_3382
ABC transporter related
Spea_3382
Operon
DOOR ID:
359806
Spea_3380
(cobT)
,
Spea_3381,
Spea_3382
View Structure
11
4146892-4146991
(+)
purine
4147085-4148081 (+)
Spea_3392
Adenosine deaminase (Adenosine aminohydrolase)
Spea_3392
Single gene
DOOR ID:
2148001
Spea_3392
View Structure
12
4449058-4449140
(-)
c-di-GMP-I
4446807-4448991 (-)
Spea_3655
Glycoside hydrolase family 18
Spea_3655
single gene
DOOR ID:
2148133
Spea_3655
View Structure
13
4453881-4453980
(+)
purine
4454084-4455455 (+)
Spea_3662
Xanthine/uracil/vitamin C permease
Spea_3662
Single gene
DOOR ID:
2148138
Spea_3662
View Structure
14
5004406-5004542
(-)
MOCO
5002815-5003340 (-)
Spea_4119
Molybdenum cofactor biosynthesis protein B
Spea_4119
Operon
DOOR ID:
359927
Spea_4113,
Spea_4114,
Spea_4115,
Spea_4116,
Spea_4117,
Spea_4118
(moaC)
,
Spea_4119,
Spea_4120
(moaA)
View Structure
Genome:
Shewanella pealeana ATCC 700345
(
NC_009901.1
);
Phylum:
Gammaproteobacteria
a:15:{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_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"146483-146744";i:6;s:1:"-";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:13:"145677-146316";i:10;s:1:"-";i:11;s:4:"ribB";i:12;s:65:"3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)";i:13;s:9:"Spea_0131";i:14;s:11:"Single gene";i:15;s:7:"2146270";i:16;s:15:"Spea_0131(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"791651-791779";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:13:"791002-791557";i:10;s:1:"-";i:11;s:9:"Spea_0640";i:12;s:0:"";i:13;s:9:"Spea_0640";i:14;s:11:"Single gene";i:15;s:7:"2146515";i:16;s:9:"Spea_0640";i:17;s:0:"";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"879639-879784";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:13:"879988-881359";i:10;s:1:"+";i:11;s:9:"Spea_0715";i:12;s:26:"Amino acid carrier protein";i:13;s:9:"Spea_0715";i:14;s:11:"Single gene";i:15;s:7:"2146554";i:16;s:9:"Spea_0715";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"912567-912749";i:6;s:1:"+";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:13:"912894-914265";i:10;s:1:"+";i:11;s:9:"Spea_0735";i:12;s:14:"Aspartokinase ";i:13;s:9:"Spea_0735";i:14;s:6:"Operon";i:15;s:6:"359371";i:16;s:19:"Spea_0735;Spea_0736";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_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2226508-2226638";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2226690-2228829";i:10;s:1:"+";i:11;s:9:"Spea_1828";i:12;s:23:"TonB-dependent receptor";i:13;s:9:"Spea_1828";i:14;s:11:"Single gene";i:15;s:7:"2147155";i:16;s:9:"Spea_1828";i:17;s:0:"";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2907051-2907149";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2904900-2906904";i:10;s:1:"-";i:11;s:9:"Spea_2383";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:"Spea_2383";i:14;s:6:"Operon";i:15;s:6:"359647";i:16;s:65:"Spea_2378(thiH);Spea_2379;Spea_2380;Spea_2381;Spea_2382;Spea_2383";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3485105-3485326";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"3483445-3485026";i:10;s:1:"-";i:11;s:9:"Spea_2853";i:12;s:22:"Na+/H+ antiporter NhaC";i:13;s:9:"Spea_2853";i:14;s:11:"Single gene";i:15;s:7:"2147681";i:16;s:9:"Spea_2853";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3932305-3932527";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"3930328-3932182";i:10;s:1:"-";i:11;s:9:"Spea_3206";i:12;s:28:"TonB-dependent receptor plug";i:13;s:9:"Spea_3206";i:14;s:11:"Single gene";i:15;s:7:"2147877";i:16;s:9:"Spea_3206";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3998279-3998452";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"3996612-3998196";i:10;s:1:"-";i:11;s:9:"Spea_3259";i:12;s:22:"Na+/H+ antiporter NhaC";i:13;s:9:"Spea_3259";i:14;s:11:"Single gene";i:15;s:7:"2147920";i:16;s:9:"Spea_3259";i:17;s:0:"";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4131260-4131412";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4130214-4131141";i:10;s:1:"-";i:11;s:9:"Spea_3382";i:12;s:23:"ABC transporter related";i:13;s:9:"Spea_3382";i:14;s:6:"Operon";i:15;s:6:"359806";i:16;s:35:"Spea_3380(cobT);Spea_3381;Spea_3382";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4146892-4146991";i:6;s:1:"+";i:7;s:6:"purine";i:8;s:0:"";i:9;s:15:"4147085-4148081";i:10;s:1:"+";i:11;s:9:"Spea_3392";i:12;s:47:"Adenosine deaminase (Adenosine aminohydrolase)";i:13;s:9:"Spea_3392";i:14;s:11:"Single gene";i:15;s:7:"2148001";i:16;s:9:"Spea_3392";i:17;s:112:"nucleotide metabolic process [GO:0009117]; purine ribonucleoside monophosphate biosynthetic process [GO:0009168]";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4449058-4449140";i:6;s:1:"-";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"4446807-4448991";i:10;s:1:"-";i:11;s:9:"Spea_3655";i:12;s:29:"Glycoside hydrolase family 18";i:13;s:9:"Spea_3655";i:14;s:11:"single gene";i:15;s:7:"2148133";i:16;s:9:"Spea_3655";i:17;s:43:"carbohydrate metabolic process [GO:0005975]";i:18;s:15:"View Structure ";}i:13;a:19:{i:0;i:13;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4453881-4453980";i:6;s:1:"+";i:7;s:6:"purine";i:8;s:0:"";i:9;s:15:"4454084-4455455";i:10;s:1:"+";i:11;s:9:"Spea_3662";i:12;s:34:"Xanthine/uracil/vitamin C permease";i:13;s:9:"Spea_3662";i:14;s:11:"Single gene";i:15;s:7:"2148138";i:16;s:9:"Spea_3662";i:17;s:0:"";i:18;s:15:"View Structure ";}i:14;a:19:{i:0;i:14;i:1;s:11:"NC_009901.1";i:2;s:32:"Shewanella pealeana ATCC 700345 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"5004406-5004542";i:6;s:1:"-";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:15:"5002815-5003340";i:10;s:1:"-";i:11;s:9:"Spea_4119";i:12;s:42:"Molybdenum cofactor biosynthesis protein B";i:13;s:9:"Spea_4119";i:14;s:6:"Operon";i:15;s:6:"359927";i:16;s:91:"Spea_4113;Spea_4114;Spea_4115;Spea_4116;Spea_4117;Spea_4118(moaC);Spea_4119;Spea_4120(moaA)";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}}
