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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
757730-757918
(-)
yybP-ykoY
756461-757136 (+)
PP1Y_AT7076
Two-component system; OmpR family; phosphate regulon response regulator PhoB
PP1Y_AT7076
Single gene
DOOR ID:
3161304
PP1Y_AT7076
View Structure
2
896682-896789
(+)
TPP
896828-898697 (+)
PP1Y_AT8351
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
PP1Y_AT8351
Single gene
DOOR ID:
3161344
PP1Y_AT8351
View Structure
3
1829540-1829737
(+)
cobalamin
1829830-1831747 (+)
PP1Y_AT17349
TonB-dependent receptor
PP1Y_AT17349
Operon
DOOR ID:
865454
PP1Y_AT17349,
PP1Y_AT17363,
PP1Y_AT17370,
PP1Y_AT17372
View Structure
4
2096216-2096473
(+)
cobalamin
2096654-2097701 (+)
PP1Y_AT19766
Nickel/cobalt efflux system
PP1Y_AT19766
Single gene
DOOR ID:
3161751
PP1Y_AT19766
View Structure
5
2097777-2098015
(+)
cobalamin
2098177-2099236 (+)
PP1Y_AT19780
Cobalamin biosynthesis protein CobW
PP1Y_AT19780
Operon
DOOR ID:
865507
PP1Y_AT19780,
PP1Y_AT19787,
PP1Y_AT19816,
PP1Y_AT19820,
PP1Y_AT19827,
PP1Y_AT19833
View Structure
6
2784709-2784904
(-)
cobalamin
2784123-2784531 (-)
PP1Y_AT26544
PP1Y_AT26544
Operon
DOOR ID:
865632
PP1Y_AT26528,
PP1Y_AT26536,
PP1Y_AT26544
View Structure
7
2784964-2785173
(+)
cobalamin
2785338-2785956 (+)
PP1Y_AT26559
Cob(I)yrinic acid a;c-diamide adenosyltransferase (7) (Cob(I)alamin adenosyltransferase) (Corrinoid adenosyltransferase)
PP1Y_AT26559
Single gene
DOOR ID:
3161970
PP1Y_AT26559
View Structure
8
2940059-2940179
(-)
glycine
2938864-2940010 (-)
PP1Y_AT27970
Aminomethyltransferase (0)
PP1Y_AT27970
Operon
DOOR ID:
865657
PP1Y_AT27925,
PP1Y_AT27936,
PP1Y_AT27955,
PP1Y_AT27967,
PP1Y_AT27970
View Structure
9
2940180-2940293
(-)
glycine
2938864-2940010 (-)
PP1Y_AT27970
Aminomethyltransferase (0)
PP1Y_AT27970
Operon
DOOR ID:
865657
PP1Y_AT27925,
PP1Y_AT27936,
PP1Y_AT27955,
PP1Y_AT27967,
PP1Y_AT27970
View Structure
Genome:
Novosphingobium sp. PP1Y
(
NC_015580.1
);
Phylum:
Alphaproteobacteria
a:10:{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_015580.1";i:2;s:25:"Novosphingobium sp. PP1Y ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"757730-757918";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:13:"756461-757136";i:10;s:1:"+";i:11;s:11:"PP1Y_AT7076";i:12;s:76:"Two-component system; OmpR family; phosphate regulon response regulator PhoB";i:13;s:11:"PP1Y_AT7076";i:14;s:11:"Single gene";i:15;s:7:"3161304";i:16;s:11:"PP1Y_AT7076";i:17;s:152:"phosphorelay signal transduction system [GO:0000160]; regulation of transcription; DNA-templated [GO:0006355]; transcription; DNA-templated [GO:0006351]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_015580.1";i:2;s:25:"Novosphingobium sp. PP1Y ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"896682-896789";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:13:"896828-898697";i:10;s:1:"+";i:11;s:11:"PP1Y_AT8351";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:11:"PP1Y_AT8351";i:14;s:11:"Single gene";i:15;s:7:"3161344";i:16;s:11:"PP1Y_AT8351";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; 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_015580.1";i:2;s:25:"Novosphingobium sp. PP1Y ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"1829540-1829737";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"1829830-1831747";i:10;s:1:"+";i:11;s:12:"PP1Y_AT17349";i:12;s:23:"TonB-dependent receptor";i:13;s:12:"PP1Y_AT17349";i:14;s:6:"Operon";i:15;s:6:"865454";i:16;s:51:"PP1Y_AT17349;PP1Y_AT17363;PP1Y_AT17370;PP1Y_AT17372";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_015580.1";i:2;s:25:"Novosphingobium sp. PP1Y ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2096216-2096473";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2096654-2097701";i:10;s:1:"+";i:11;s:12:"PP1Y_AT19766";i:12;s:27:"Nickel/cobalt efflux system";i:13;s:12:"PP1Y_AT19766";i:14;s:11:"Single gene";i:15;s:7:"3161751";i:16;s:12:"PP1Y_AT19766";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_015580.1";i:2;s:25:"Novosphingobium sp. PP1Y ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2097777-2098015";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2098177-2099236";i:10;s:1:"+";i:11;s:12:"PP1Y_AT19780";i:12;s:35:"Cobalamin biosynthesis protein CobW";i:13;s:12:"PP1Y_AT19780";i:14;s:6:"Operon";i:15;s:6:"865507";i:16;s:77:"PP1Y_AT19780;PP1Y_AT19787;PP1Y_AT19816;PP1Y_AT19820;PP1Y_AT19827;PP1Y_AT19833";i:17;s:43:"cobalamin biosynthetic process [GO:0009236]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_015580.1";i:2;s:25:"Novosphingobium sp. PP1Y ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2784709-2784904";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2784123-2784531";i:10;s:1:"-";i:11;s:12:"PP1Y_AT26544";i:12;s:0:"";i:13;s:12:"PP1Y_AT26544";i:14;s:6:"Operon";i:15;s:6:"865632";i:16;s:38:"PP1Y_AT26528;PP1Y_AT26536;PP1Y_AT26544";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_015580.1";i:2;s:25:"Novosphingobium sp. PP1Y ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2784964-2785173";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2785338-2785956";i:10;s:1:"+";i:11;s:12:"PP1Y_AT26559";i:12;s:120:"Cob(I)yrinic acid a;c-diamide adenosyltransferase (7) (Cob(I)alamin adenosyltransferase) (Corrinoid adenosyltransferase)";i:13;s:12:"PP1Y_AT26559";i:14;s:11:"Single gene";i:15;s:7:"3161970";i:16;s:12:"PP1Y_AT26559";i:17;s:108:"cobalamin biosynthetic process [GO:0009236]; porphyrin-containing compound biosynthetic process [GO:0006779]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_015580.1";i:2;s:25:"Novosphingobium sp. PP1Y ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2940059-2940179";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"2938864-2940010";i:10;s:1:"-";i:11;s:12:"PP1Y_AT27970";i:12;s:26:"Aminomethyltransferase (0)";i:13;s:12:"PP1Y_AT27970";i:14;s:6:"Operon";i:15;s:6:"865657";i:16;s:64:"PP1Y_AT27925;PP1Y_AT27936;PP1Y_AT27955;PP1Y_AT27967;PP1Y_AT27970";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_015580.1";i:2;s:25:"Novosphingobium sp. PP1Y ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2940180-2940293";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"2938864-2940010";i:10;s:1:"-";i:11;s:12:"PP1Y_AT27970";i:12;s:26:"Aminomethyltransferase (0)";i:13;s:12:"PP1Y_AT27970";i:14;s:6:"Operon";i:15;s:6:"865657";i:16;s:64:"PP1Y_AT27925;PP1Y_AT27936;PP1Y_AT27955;PP1Y_AT27967;PP1Y_AT27970";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}}
