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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
82815-82894
(-)
c-di-GMP-I
82038-82797 (-)
Q7A_82
PEP-CTERM sorting domain-containing protein (Thrombospondin)
Q7A_82
single gene
DOOR ID:
3792571
Q7A_82
View Structure
2
844798-844875
(+)
c-di-GMP-I
844998-845439 (+)
Q7A_833
Uncharacterized protein
Q7A_833
single gene
DOOR ID:
3792787
Q7A_833
View Structure
3
974248-974353
(-)
TPP
972119-974186 (-)
Q7A_961
TonB-dependent receptor
Q7A_961
Operon
DOOR ID:
1093629
Q7A_959,
Q7A_960,
Q7A_961
View Structure
4
1230912-1231051
(-)
yybP-ykoY
1230270-1230825 (-)
Q7A_1223
Hypothetical transmembrane protein
Q7A_1223
Single gene
DOOR ID:
3792884
Q7A_1223
View Structure
5
1390539-1390615
(+)
c-di-GMP-I
1390632-1391220 (+)
Q7A_1388
VPLPA-CTERM sorting domain-containing protein
Q7A_1388
operon
DOOR ID:
1093721
Q7A_1388,
Q7A_1389
View Structure
6
1405172-1405256
(+)
c-di-GMP-I
1405284-1405809 (+)
Q7A_1400
Uncharacterized protein
Q7A_1400
single gene
DOOR ID:
3792927
Q7A_1400
View Structure
7
1406093-1406178
(+)
c-di-GMP-I
1406206-1406737 (+)
Q7A_1401
Uncharacterized protein
Q7A_1401
single gene
DOOR ID:
3792928
Q7A_1401
View Structure
8
1407034-1407118
(+)
c-di-GMP-I
1407146-1407671 (+)
Q7A_1402
Uncharacterized protein
Q7A_1402
single gene
DOOR ID:
3792929
Q7A_1402
View Structure
9
2162931-2163035
(-)
TPP
2161012-2162824 (-)
Q7A_2106
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Q7A_2106
Operon
DOOR ID:
1093872
Q7A_2102,
Q7A_2103,
Q7A_2104,
Q7A_2105,
Q7A_2106
View Structure
10
2303337-2303532
(-)
cobalamin
2301389-2303276 (-)
Q7A_2232
Outer membrane vitamin B12 receptor BtuB
Q7A_2232
Single gene
DOOR ID:
3793190
Q7A_2232
View Structure
11
2303612-2303814
(+)
cobalamin
2303868-2304444 (+)
Q7A_2233
Optional hypothetical component of the B12 transporter BtuM
Q7A_2233
Operon
DOOR ID:
1093897
Q7A_2233,
Q7A_2234,
Q7A_2235,
Q7A_2236,
Q7A_2237,
Q7A_2238,
Q7A_2239,
Q7A_2240,
Q7A_2241,
Q7A_2242
View Structure
12
2566533-2566609
(+)
SAH
2566700-2567864 (+)
Q7A_2511
S-adenosylmethionine synthase (AdoMet synthase) (MAT) (Methionine adenosyltransferase)
Q7A_2511
Operon
DOOR ID:
1093948
Q7A_2511,
Q7A_2512,
Q7A_2513,
Q7A_2514,
Q7A_2515
View Structure
Genome:
Methylophaga sp. JAM1
(
NC_017857.1
);
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_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:11:"82815-82894";i:6;s:1:"-";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:11:"82038-82797";i:10;s:1:"-";i:11;s:6:"Q7A_82";i:12;s:60:"PEP-CTERM sorting domain-containing protein (Thrombospondin)";i:13;s:6:"Q7A_82";i:14;s:11:"single gene";i:15;s:7:"3792571";i:16;s:6:"Q7A_82";i:17;s:74:"cell adhesion [GO:0007155]; extracellular matrix organization [GO:0030198]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"844798-844875";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:13:"844998-845439";i:10;s:1:"+";i:11;s:7:"Q7A_833";i:12;s:23:"Uncharacterized protein";i:13;s:7:"Q7A_833";i:14;s:11:"single gene";i:15;s:7:"3792787";i:16;s:7:"Q7A_833";i:17;s:0:"";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"974248-974353";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:13:"972119-974186";i:10;s:1:"-";i:11;s:7:"Q7A_961";i:12;s:23:"TonB-dependent receptor";i:13;s:7:"Q7A_961";i:14;s:6:"Operon";i:15;s:7:"1093629";i:16;s:23:"Q7A_959;Q7A_960;Q7A_961";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1230912-1231051";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"1230270-1230825";i:10;s:1:"-";i:11;s:8:"Q7A_1223";i:12;s:34:"Hypothetical transmembrane protein";i:13;s:8:"Q7A_1223";i:14;s:11:"Single gene";i:15;s:7:"3792884";i:16;s:8:"Q7A_1223";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1390539-1390615";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"1390632-1391220";i:10;s:1:"+";i:11;s:8:"Q7A_1388";i:12;s:45:"VPLPA-CTERM sorting domain-containing protein";i:13;s:8:"Q7A_1388";i:14;s:6:"operon";i:15;s:7:"1093721";i:16;s:17:"Q7A_1388;Q7A_1389";i:17;s:0:"";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1405172-1405256";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"1405284-1405809";i:10;s:1:"+";i:11;s:8:"Q7A_1400";i:12;s:23:"Uncharacterized protein";i:13;s:8:"Q7A_1400";i:14;s:11:"single gene";i:15;s:7:"3792927";i:16;s:8:"Q7A_1400";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1406093-1406178";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"1406206-1406737";i:10;s:1:"+";i:11;s:8:"Q7A_1401";i:12;s:23:"Uncharacterized protein";i:13;s:8:"Q7A_1401";i:14;s:11:"single gene";i:15;s:7:"3792928";i:16;s:8:"Q7A_1401";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1407034-1407118";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"1407146-1407671";i:10;s:1:"+";i:11;s:8:"Q7A_1402";i:12;s:23:"Uncharacterized protein";i:13;s:8:"Q7A_1402";i:14;s:11:"single gene";i:15;s:7:"3792929";i:16;s:8:"Q7A_1402";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2162931-2163035";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2161012-2162824";i:10;s:1:"-";i:11;s:8:"Q7A_2106";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:8:"Q7A_2106";i:14;s:6:"Operon";i:15;s:7:"1093872";i:16;s:44:"Q7A_2102;Q7A_2103;Q7A_2104;Q7A_2105;Q7A_2106";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2303337-2303532";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2301389-2303276";i:10;s:1:"-";i:11;s:8:"Q7A_2232";i:12;s:40:"Outer membrane vitamin B12 receptor BtuB";i:13;s:8:"Q7A_2232";i:14;s:11:"Single gene";i:15;s:7:"3793190";i:16;s:8:"Q7A_2232";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2303612-2303814";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2303868-2304444";i:10;s:1:"+";i:11;s:8:"Q7A_2233";i:12;s:59:"Optional hypothetical component of the B12 transporter BtuM";i:13;s:8:"Q7A_2233";i:14;s:6:"Operon";i:15;s:7:"1093897";i:16;s:89:"Q7A_2233;Q7A_2234;Q7A_2235;Q7A_2236;Q7A_2237;Q7A_2238;Q7A_2239;Q7A_2240;Q7A_2241;Q7A_2242";i:17;s:0:"";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_017857.1";i:2;s:22:"Methylophaga sp. JAM1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2566533-2566609";i:6;s:1:"+";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:15:"2566700-2567864";i:10;s:1:"+";i:11;s:8:"Q7A_2511";i:12;s:87:"S-adenosylmethionine synthase (AdoMet synthase) (MAT) (Methionine adenosyltransferase)";i:13;s:8:"Q7A_2511";i:14;s:6:"Operon";i:15;s:7:"1093948";i:16;s:44:"Q7A_2511;Q7A_2512;Q7A_2513;Q7A_2514;Q7A_2515";i:17;s:97:"one-carbon metabolic process [GO:0006730]; S-adenosylmethionine biosynthetic process [GO:0006556]";i:18;s:15:"View Structure ";}}
