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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
1418939-1419059
(+)
c-di-GMP-I
1419209-1421801 (+)
Swoo_1100
Glycoside hydrolase family 18
Swoo_1100
single gene
DOOR ID:
2251951
Swoo_1100
View Structure
2
1440820-1440919
(+)
purine
1441061-1442057 (+)
Swoo_1121
Adenosine deaminase (Adenosine aminohydrolase)
Swoo_1121
Single gene
DOOR ID:
2251966
Swoo_1121
View Structure
3
2328072-2328183
(+)
TPP
2328260-2330450 (+)
Swoo_1886
TonB-dependent receptor plug
Swoo_1886
Single gene
DOOR ID:
2252300
Swoo_1886
View Structure
4
3170742-3170840
(-)
TPP
3168639-3170598 (-)
Swoo_2592
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Swoo_2592
Operon
DOOR ID:
406851
Swoo_2587
(thiH)
,
Swoo_2588,
Swoo_2589,
Swoo_2590,
Swoo_2591,
Swoo_2592
View Structure
5
3963350-3963569
(-)
lysine
3961668-3963243 (-)
Swoo_3234
Na+/H+ antiporter NhaC
Swoo_3234
Single gene
DOOR ID:
2253009
Swoo_3234
View Structure
6
4550140-4550360
(-)
cobalamin
4548143-4550030 (-)
Swoo_3735
TonB-dependent receptor plug
Swoo_3735
Single gene
DOOR ID:
2253280
Swoo_3735
View Structure
7
4579353-4579527
(+)
lysine
4579662-4581015 (+)
Swoo_3764
Aspartokinase
Swoo_3764
Single gene
DOOR ID:
2253299
Swoo_3764
View Structure
8
4619896-4620025
(-)
glycine
4618325-4619699 (-)
Swoo_3785
Amino acid carrier protein
Swoo_3785
Single gene
DOOR ID:
2253313
Swoo_3785
View Structure
9
4728769-4728867
(-)
c-di-GMP-I
4727209-4728643 (-)
Swoo_3879
Chitin-binding domain 3 protein
Swoo_3879
single gene
DOOR ID:
2253370
Swoo_3879
View Structure
10
4729098-4729215
(+)
yybP-ykoY
4729320-4729887 (+)
Swoo_3880
Swoo_3880
Single gene
DOOR ID:
2253371
Swoo_3880
View Structure
11
4958669-4958861
(-)
cobalamin
4957665-4958505 (-)
Swoo_4086
ABC transporter related
Swoo_4086
Operon
DOOR ID:
407087
Swoo_4085,
Swoo_4086
View Structure
12
5749184-5749429
(+)
FMN
5749585-5750239 (+)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
Swoo_4764
Single gene
DOOR ID:
2253789
Swoo_4764
(ribB)
View Structure
13
5779002-5779136
(-)
MOCO
5777401-5777926 (-)
Swoo_4792
Molybdenum cofactor biosynthesis protein B
Swoo_4792
Operon
DOOR ID:
407209
Swoo_4786,
Swoo_4787,
Swoo_4788,
Swoo_4789,
Swoo_4790,
Swoo_4791
(moaC)
,
Swoo_4792
View Structure
Genome:
Shewanella woodyi ATCC 51908
(
NC_010506.1
);
Phylum:
Gammaproteobacteria
a:14:{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_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1418939-1419059";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"1419209-1421801";i:10;s:1:"+";i:11;s:9:"Swoo_1100";i:12;s:29:"Glycoside hydrolase family 18";i:13;s:9:"Swoo_1100";i:14;s:11:"single gene";i:15;s:7:"2251951";i:16;s:9:"Swoo_1100";i:17;s:82:"carbohydrate metabolic process [GO:0005975]; chitin catabolic process [GO:0006032]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1440820-1440919";i:6;s:1:"+";i:7;s:6:"purine";i:8;s:0:"";i:9;s:15:"1441061-1442057";i:10;s:1:"+";i:11;s:9:"Swoo_1121";i:12;s:47:"Adenosine deaminase (Adenosine aminohydrolase)";i:13;s:9:"Swoo_1121";i:14;s:11:"Single gene";i:15;s:7:"2251966";i:16;s:9:"Swoo_1121";i:17;s:112:"nucleotide metabolic process [GO:0009117]; purine ribonucleoside monophosphate biosynthetic process [GO:0009168]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2328072-2328183";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2328260-2330450";i:10;s:1:"+";i:11;s:9:"Swoo_1886";i:12;s:28:"TonB-dependent receptor plug";i:13;s:9:"Swoo_1886";i:14;s:11:"Single gene";i:15;s:7:"2252300";i:16;s:9:"Swoo_1886";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3170742-3170840";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"3168639-3170598";i:10;s:1:"-";i:11;s:9:"Swoo_2592";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:"Swoo_2592";i:14;s:6:"Operon";i:15;s:6:"406851";i:16;s:65:"Swoo_2587(thiH);Swoo_2588;Swoo_2589;Swoo_2590;Swoo_2591;Swoo_2592";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3963350-3963569";i:6;s:1:"-";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"3961668-3963243";i:10;s:1:"-";i:11;s:9:"Swoo_3234";i:12;s:22:"Na+/H+ antiporter NhaC";i:13;s:9:"Swoo_3234";i:14;s:11:"Single gene";i:15;s:7:"2253009";i:16;s:9:"Swoo_3234";i:17;s:0:"";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4550140-4550360";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4548143-4550030";i:10;s:1:"-";i:11;s:9:"Swoo_3735";i:12;s:28:"TonB-dependent receptor plug";i:13;s:9:"Swoo_3735";i:14;s:11:"Single gene";i:15;s:7:"2253280";i:16;s:9:"Swoo_3735";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4579353-4579527";i:6;s:1:"+";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"4579662-4581015";i:10;s:1:"+";i:11;s:9:"Swoo_3764";i:12;s:14:"Aspartokinase ";i:13;s:9:"Swoo_3764";i:14;s:11:"Single gene";i:15;s:7:"2253299";i:16;s:9:"Swoo_3764";i:17;s:105:"lysine biosynthetic process via diaminopimelate [GO:0009089]; threonine biosynthetic process [GO:0009088]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4619896-4620025";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"4618325-4619699";i:10;s:1:"-";i:11;s:9:"Swoo_3785";i:12;s:26:"Amino acid carrier protein";i:13;s:9:"Swoo_3785";i:14;s:11:"Single gene";i:15;s:7:"2253313";i:16;s:9:"Swoo_3785";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4728769-4728867";i:6;s:1:"-";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"4727209-4728643";i:10;s:1:"-";i:11;s:9:"Swoo_3879";i:12;s:31:"Chitin-binding domain 3 protein";i:13;s:9:"Swoo_3879";i:14;s:11:"single gene";i:15;s:7:"2253370";i:16;s:9:"Swoo_3879";i:17;s:0:"";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4729098-4729215";i:6;s:1:"+";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"4729320-4729887";i:10;s:1:"+";i:11;s:9:"Swoo_3880";i:12;s:0:"";i:13;s:9:"Swoo_3880";i:14;s:11:"Single gene";i:15;s:7:"2253371";i:16;s:9:"Swoo_3880";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4958669-4958861";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4957665-4958505";i:10;s:1:"-";i:11;s:9:"Swoo_4086";i:12;s:23:"ABC transporter related";i:13;s:9:"Swoo_4086";i:14;s:6:"Operon";i:15;s:6:"407087";i:16;s:19:"Swoo_4085;Swoo_4086";i:17;s:0:"";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"5749184-5749429";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"5749585-5750239";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:"Swoo_4764";i:14;s:11:"Single gene";i:15;s:7:"2253789";i:16;s:15:"Swoo_4764(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}i:13;a:19:{i:0;i:13;i:1;s:11:"NC_010506.1";i:2;s:29:"Shewanella woodyi ATCC 51908 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"5779002-5779136";i:6;s:1:"-";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:15:"5777401-5777926";i:10;s:1:"-";i:11;s:9:"Swoo_4792";i:12;s:42:"Molybdenum cofactor biosynthesis protein B";i:13;s:9:"Swoo_4792";i:14;s:6:"Operon";i:15;s:6:"407209";i:16;s:75:"Swoo_4786;Swoo_4787;Swoo_4788;Swoo_4789;Swoo_4790;Swoo_4791(moaC);Swoo_4792";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}}
