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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
245054-245224
(+)
ZMP-ZTP
245244-245874 (+)
rhtB
RhtB family transporter
Avi_0289
Single gene
DOOR ID:
2501088
Avi_0289
(rhtB)
View Structure
2
463970-464048
(-)
sam-alpha
462734-463919 (-)
metZ
O-succinylhomoserine sulfhydrylase (OSH sulfhydrylase) (OSHS sulfhydrylase)
Avi_0544
Single gene
DOOR ID:
2501193
Avi_0544
(metZ)
View Structure
3
960912-960988
(-)
fluoride
959380-960829 (-)
Avi_1136
Avi_1136
Operon
DOOR ID:
526259
Avi_1135,
Avi_1136
View Structure
4
1677122-1677303
(+)
cobalamin
1677381-1678068 (+)
Avi_2042
Nitroreductase
Avi_2042
Single gene
DOOR ID:
2501719
Avi_2042
View Structure
5
1854409-1854495
(-)
glycine
1853117-1854257 (-)
gcvT
Glycine cleavage system T protein aminomethyltransferase
Avi_2254
Operon
DOOR ID:
526403
Avi_2252
(gcvP)
,
Avi_2253
(gcvH)
,
Avi_2254
(gcvT)
View Structure
6
2057123-2057231
(+)
ykkC-yxkD
2057301-2058375 (+)
Avi_2497
Possible taurine transport system protein
Avi_2497
Operon
DOOR ID:
526438
Avi_2497,
Avi_2498,
Avi_2499,
Avi_2500,
Avi_2501,
Avi_2502
(pccA)
View Structure
7
2060016-2060065
(+)
mini-ykkC
2060089-2060917 (+)
Avi_2500
Avi_2500
Operon
DOOR ID:
526438
Avi_2497,
Avi_2498,
Avi_2499,
Avi_2500,
Avi_2501,
Avi_2502
(pccA)
View Structure
8
2192900-2193283
(-)
cobalamin
2192457-2192760 (-)
Avi_2651
Avi_2651
Operon
DOOR ID:
526457
Avi_2646
(cobO)
,
Avi_2647
(cobN)
,
Avi_2648
(cobW)
,
Avi_2650
(cobU)
,
Avi_2651
View Structure
9
3575563-3575640
(-)
sam-alpha
3574563-3575493 (-)
metA
Homoserine O-acetyltransferase (HAT) (1) (Homoserine transacetylase) (HTA)
Avi_4253
Operon
DOOR ID:
526685
Avi_4250,
Avi_4251,
Avi_4253
(metA)
View Structure
10
3584631-3584738
(+)
TPP
3584779-3585781 (+)
tbpA
ABC transporter substrate binding protein (Thiamine)
Avi_4266
Operon
DOOR ID:
526688
Avi_4266
(tbpA)
,
Avi_4267
(thiP)
,
Avi_4268
(thiQ)
View Structure
Genome:
Agrobacterium vitis S4 chromosome I
(
NC_011989.1
);
Phylum:
Alphaproteobacteria
a:11:{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_011989.1";i:2;s:35:"Agrobacterium vitis S4 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"245054-245224";i:6;s:1:"+";i:7;s:7:"ZMP-ZTP";i:8;s:0:"";i:9;s:13:"245244-245874";i:10;s:1:"+";i:11;s:4:"rhtB";i:12;s:23:"RhtB family transporter";i:13;s:8:"Avi_0289";i:14;s:11:"Single gene";i:15;s:7:"2501088";i:16;s:14:"Avi_0289(rhtB)";i:17;s:33:"amino acid transport [GO:0006865]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_011989.1";i:2;s:35:"Agrobacterium vitis S4 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"463970-464048";i:6;s:1:"-";i:7;s:9:"sam-alpha";i:8;s:0:"";i:9;s:13:"462734-463919";i:10;s:1:"-";i:11;s:4:"metZ";i:12;s:76:"O-succinylhomoserine sulfhydrylase (OSH sulfhydrylase) (OSHS sulfhydrylase) ";i:13;s:8:"Avi_0544";i:14;s:11:"Single gene";i:15;s:7:"2501193";i:16;s:14:"Avi_0544(metZ)";i:17;s:104:"'de novo' L-methionine biosynthetic process [GO:0071266]; homocysteine biosynthetic process [GO:0071268]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_011989.1";i:2;s:35:"Agrobacterium vitis S4 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"960912-960988";i:6;s:1:"-";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:13:"959380-960829";i:10;s:1:"-";i:11;s:8:"Avi_1136";i:12;s:0:"";i:13;s:8:"Avi_1136";i:14;s:6:"Operon";i:15;s:6:"526259";i:16;s:17:"Avi_1135;Avi_1136";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_011989.1";i:2;s:35:"Agrobacterium vitis S4 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"1677122-1677303";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"1677381-1678068";i:10;s:1:"+";i:11;s:8:"Avi_2042";i:12;s:14:"Nitroreductase";i:13;s:8:"Avi_2042";i:14;s:11:"Single gene";i:15;s:7:"2501719";i:16;s:8:"Avi_2042";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_011989.1";i:2;s:35:"Agrobacterium vitis S4 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"1854409-1854495";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"1853117-1854257";i:10;s:1:"-";i:11;s:4:"gcvT";i:12;s:56:"Glycine cleavage system T protein aminomethyltransferase";i:13;s:8:"Avi_2254";i:14;s:6:"Operon";i:15;s:6:"526403";i:16;s:44:"Avi_2252(gcvP);Avi_2253(gcvH);Avi_2254(gcvT)";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_011989.1";i:2;s:35:"Agrobacterium vitis S4 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2057123-2057231";i:6;s:1:"+";i:7;s:9:"ykkC-yxkD";i:8;s:0:"";i:9;s:15:"2057301-2058375";i:10;s:1:"+";i:11;s:8:"Avi_2497";i:12;s:41:"Possible taurine transport system protein";i:13;s:8:"Avi_2497";i:14;s:6:"Operon";i:15;s:6:"526438";i:16;s:59:"Avi_2497;Avi_2498;Avi_2499;Avi_2500;Avi_2501;Avi_2502(pccA)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_011989.1";i:2;s:35:"Agrobacterium vitis S4 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2060016-2060065";i:6;s:1:"+";i:7;s:9:"mini-ykkC";i:8;s:0:"";i:9;s:15:"2060089-2060917";i:10;s:1:"+";i:11;s:8:"Avi_2500";i:12;s:0:"";i:13;s:8:"Avi_2500";i:14;s:6:"Operon";i:15;s:6:"526438";i:16;s:59:"Avi_2497;Avi_2498;Avi_2499;Avi_2500;Avi_2501;Avi_2502(pccA)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_011989.1";i:2;s:35:"Agrobacterium vitis S4 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2192900-2193283";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2192457-2192760";i:10;s:1:"-";i:11;s:8:"Avi_2651";i:12;s:0:"";i:13;s:8:"Avi_2651";i:14;s:6:"Operon";i:15;s:6:"526457";i:16;s:68:"Avi_2646(cobO);Avi_2647(cobN);Avi_2648(cobW);Avi_2650(cobU);Avi_2651";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_011989.1";i:2;s:35:"Agrobacterium vitis S4 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"3575563-3575640";i:6;s:1:"-";i:7;s:9:"sam-alpha";i:8;s:0:"";i:9;s:15:"3574563-3575493";i:10;s:1:"-";i:11;s:4:"metA";i:12;s:74:"Homoserine O-acetyltransferase (HAT) (1) (Homoserine transacetylase) (HTA)";i:13;s:8:"Avi_4253";i:14;s:6:"Operon";i:15;s:6:"526685";i:16;s:32:"Avi_4250;Avi_4251;Avi_4253(metA)";i:17;s:108:"L-methionine biosynthetic process from homoserine via O-succinyl-L-homoserine and cystathionine [GO:0019281]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_011989.1";i:2;s:35:"Agrobacterium vitis S4 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"3584631-3584738";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"3584779-3585781";i:10;s:1:"+";i:11;s:4:"tbpA";i:12;s:52:"ABC transporter substrate binding protein (Thiamine)";i:13;s:8:"Avi_4266";i:14;s:6:"Operon";i:15;s:6:"526688";i:16;s:44:"Avi_4266(tbpA);Avi_4267(thiP);Avi_4268(thiQ)";i:17;s:31:"thiamine transport [GO:0015888]";i:18;s:15:"View Structure ";}}
