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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
138702-138776
(+)
SAH
138814-141550 (+)
metH
Methionine synthase (3) (5-methyltetrahydrofolate--homocysteine methyltransferase)
Rta_01390
Single gene
DOOR ID:
3191452
Rta_01390
(metH)
View Structure
2
725205-725273
(+)
SAH
725347-726784 (+)
ahcY
Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)
Rta_06910
Operon
DOOR ID:
880335
Rta_06910
(ahcY)
,
Rta_06920,
Rta_06930
(metF)
View Structure
3
1537708-1537830
(-)
glycine
1536502-1537639 (-)
gcvT
Candidate aminomethyltransferase (Glycine cleavage system T protein)
Rta_14680
Operon
DOOR ID:
880517
Rta_14650,
Rta_14660
(gcvP)
,
Rta_14670
(gcvH)
,
Rta_14680
(gcvT)
View Structure
4
1537841-1537946
(-)
glycine
1536502-1537639 (-)
gcvT
Candidate aminomethyltransferase (Glycine cleavage system T protein)
Rta_14680
Operon
DOOR ID:
880517
Rta_14650,
Rta_14660
(gcvP)
,
Rta_14670
(gcvH)
,
Rta_14680
(gcvT)
View Structure
5
1603653-1603786
(-)
ZMP-ZTP
1602366-1603611 (-)
glyA
Serine hydroxymethyltransferase (SHMT) (Serine methylase)
Rta_15320
Operon
DOOR ID:
880531
Rta_15310,
Rta_15320
(glyA)
View Structure
6
1719670-1719906
(+)
cobalamin
1719972-1721811 (+)
Rta_16350
Outer membrane cobalamin receptor protein-like protein
Rta_16350
Operon
DOOR ID:
880553
Rta_16350,
Rta_16360,
Rta_16370,
Rta_16380,
Rta_16390,
Rta_16400,
Rta_16410,
Rta_16420,
Rta_16430,
Rta_16440,
Rta_16450,
Rta_16460,
Rta_16470,
Rta_16480
View Structure
7
2398102-2398197
(-)
TPP
2397183-2398044 (-)
thiD
Candidate phosphomethylpyrimidine kinase (HMP-phosphate kinase)
Rta_22770
Operon
DOOR ID:
880685
Rta_22670
(thiG)
,
Rta_22680
(thiS)
,
Rta_22690
(thiO)
,
Rta_22700
(thiE)
,
Rta_22710,
Rta_22720,
Rta_22730,
Rta_22740,
Rta_22750,
Rta_22760,
Rta_22770
(thiD)
View Structure
8
3739211-3739365
(+)
FMN
3739459-3740125 (+)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
Rta_35090
Single gene
DOOR ID:
3192310
Rta_35090
(ribB)
View Structure
Genome:
Ramlibacter tataouinensis TTB310
(
NC_015677.1
);
Phylum:
Betaproteobacteria
a:9:{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_015677.1";i:2;s:33:"Ramlibacter tataouinensis TTB310 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:13:"138702-138776";i:6;s:1:"+";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:13:"138814-141550";i:10;s:1:"+";i:11;s:4:"metH";i:12;s:82:"Methionine synthase (3) (5-methyltetrahydrofolate--homocysteine methyltransferase)";i:13;s:9:"Rta_01390";i:14;s:11:"Single gene";i:15;s:7:"3191452";i:16;s:15:"Rta_01390(metH)";i:17;s:60:"pteridine-containing compound metabolic process [GO:0042558]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_015677.1";i:2;s:33:"Ramlibacter tataouinensis TTB310 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:13:"725205-725273";i:6;s:1:"+";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:13:"725347-726784";i:10;s:1:"+";i:11;s:4:"ahcY";i:12;s:73:"Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)";i:13;s:9:"Rta_06910";i:14;s:6:"Operon";i:15;s:6:"880335";i:16;s:41:"Rta_06910(ahcY);Rta_06920;Rta_06930(metF)";i:17;s:96:"one-carbon metabolic process [GO:0006730]; S-adenosylhomocysteine catabolic process [GO:0019510]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_015677.1";i:2;s:33:"Ramlibacter tataouinensis TTB310 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"1537708-1537830";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"1536502-1537639";i:10;s:1:"-";i:11;s:4:"gcvT";i:12;s:68:"Candidate aminomethyltransferase (Glycine cleavage system T protein)";i:13;s:9:"Rta_14680";i:14;s:6:"Operon";i:15;s:6:"880517";i:16;s:57:"Rta_14650;Rta_14660(gcvP);Rta_14670(gcvH);Rta_14680(gcvT)";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_015677.1";i:2;s:33:"Ramlibacter tataouinensis TTB310 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"1537841-1537946";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"1536502-1537639";i:10;s:1:"-";i:11;s:4:"gcvT";i:12;s:68:"Candidate aminomethyltransferase (Glycine cleavage system T protein)";i:13;s:9:"Rta_14680";i:14;s:6:"Operon";i:15;s:6:"880517";i:16;s:57:"Rta_14650;Rta_14660(gcvP);Rta_14670(gcvH);Rta_14680(gcvT)";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_015677.1";i:2;s:33:"Ramlibacter tataouinensis TTB310 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"1603653-1603786";i:6;s:1:"-";i:7;s:7:"ZMP-ZTP";i:8;s:0:"";i:9;s:15:"1602366-1603611";i:10;s:1:"-";i:11;s:4:"glyA";i:12;s:58:"Serine hydroxymethyltransferase (SHMT) (Serine methylase) ";i:13;s:9:"Rta_15320";i:14;s:6:"Operon";i:15;s:6:"880531";i:16;s:25:"Rta_15310;Rta_15320(glyA)";i:17;s:100:"glycine biosynthetic process from serine [GO:0019264]; tetrahydrofolate interconversion [GO:0035999]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_015677.1";i:2;s:33:"Ramlibacter tataouinensis TTB310 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"1719670-1719906";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"1719972-1721811";i:10;s:1:"+";i:11;s:9:"Rta_16350";i:12;s:54:"Outer membrane cobalamin receptor protein-like protein";i:13;s:9:"Rta_16350";i:14;s:6:"Operon";i:15;s:6:"880553";i:16;s:139:"Rta_16350;Rta_16360;Rta_16370;Rta_16380;Rta_16390;Rta_16400;Rta_16410;Rta_16420;Rta_16430;Rta_16440;Rta_16450;Rta_16460;Rta_16470;Rta_16480";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_015677.1";i:2;s:33:"Ramlibacter tataouinensis TTB310 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2398102-2398197";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2397183-2398044";i:10;s:1:"-";i:11;s:4:"thiD";i:12;s:63:"Candidate phosphomethylpyrimidine kinase (HMP-phosphate kinase)";i:13;s:9:"Rta_22770";i:14;s:6:"Operon";i:15;s:6:"880685";i:16;s:139:"Rta_22670(thiG);Rta_22680(thiS);Rta_22690(thiO);Rta_22700(thiE);Rta_22710;Rta_22720;Rta_22730;Rta_22740;Rta_22750;Rta_22760;Rta_22770(thiD)";i:17;s:42:"thiamine biosynthetic process [GO:0009228]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_015677.1";i:2;s:33:"Ramlibacter tataouinensis TTB310 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"3739211-3739365";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"3739459-3740125";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:"Rta_35090";i:14;s:11:"Single gene";i:15;s:7:"3192310";i:16;s:15:"Rta_35090(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}}
