RiboswitchDB

Genome: Vibrio parahaemolyticus RIMD 2210633 chromosome II (NC_004605.1); Phylum: Gammaproteobacteria

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

127914-128021 (-)

TPP

126959-127817 (-)

VPA0136

Phosphomethylpyrimidine kinase

Operon

DOOR ID: 79040

VPA0130 (thiE),
VPA0131,
VPA0132,
VPA0133,
VPA0134,
VPA0135,
VPA0136

2

787493-787539 (+)

mini-ykkC

787559-787874 (+)

VPA0756

Single gene

DOOR ID: 1557789

VPA0756

3

1323634-1323774 (+)

FMN

1323887-1324544 (+)

ribB

3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)

Single gene

DOOR ID: 1558010

VPA1250 (ribB)

4

1369721-1369820 (+)

purine

1369909-1370923 (+)

VPA1292

Adenine deaminase (ADE) (Adenine aminohydrolase) (AAH)

Operon

DOOR ID: 79245

VPA1292,
VPA1293

5

1695926-1696030 (+)

c-di-GMP-I

1696130-1697594 (+)

VPA1598

GlcNAc-binding protein A

single gene

DOOR ID: 1558170

VPA1598

a:6:{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_004605.1";i:2;s:50:"Vibrio parahaemolyticus RIMD 2210633 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"127914-128021";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:13:"126959-127817";i:10;s:1:"-";i:11;s:7:"VPA0136";i:12;s:30:"Phosphomethylpyrimidine kinase";i:13;s:7:"VPA0136";i:14;s:6:"Operon";i:15;s:5:"79040";i:16;s:61:"VPA0130(thiE);VPA0131;VPA0132;VPA0133;VPA0134;VPA0135;VPA0136";i:17;s:42:"thiamine biosynthetic process [GO:0009228]";i:18;s:15:"View Structure
";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_004605.1";i:2;s:50:"Vibrio parahaemolyticus RIMD 2210633 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"787493-787539";i:6;s:1:"+";i:7;s:9:"mini-ykkC";i:8;s:0:"";i:9;s:13:"787559-787874";i:10;s:1:"+";i:11;s:7:"VPA0756";i:12;s:0:"";i:13;s:7:"VPA0756";i:14;s:11:"Single gene";i:15;s:7:"1557789";i:16;s:7:"VPA0756";i:17;s:0:"";i:18;s:15:"View Structure
";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_004605.1";i:2;s:50:"Vibrio parahaemolyticus RIMD 2210633 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1323634-1323774";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"1323887-1324544";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:7:"VPA1250";i:14;s:11:"Single gene";i:15;s:7:"1558010";i:16;s:13:"VPA1250(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure
";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_004605.1";i:2;s:50:"Vibrio parahaemolyticus RIMD 2210633 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1369721-1369820";i:6;s:1:"+";i:7;s:6:"purine";i:8;s:0:"";i:9;s:15:"1369909-1370923";i:10;s:1:"+";i:11;s:7:"VPA1292";i:12;s:55:"Adenine deaminase (ADE)  (Adenine aminohydrolase) (AAH)";i:13;s:7:"VPA1292";i:14;s:6:"Operon";i:15;s:5:"79245";i:16;s:15:"VPA1292;VPA1293";i:17;s:81:"adenine catabolic process [GO:0006146]; nucleotide metabolic process [GO:0009117]";i:18;s:15:"View Structure
";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_004605.1";i:2;s:50:"Vibrio parahaemolyticus RIMD 2210633 chromosome II";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1695926-1696030";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"1696130-1697594";i:10;s:1:"+";i:11;s:7:"VPA1598";i:12;s:24:"GlcNAc-binding protein A";i:13;s:7:"VPA1598";i:14;s:11:"single gene";i:15;s:7:"1558170";i:16;s:7:"VPA1598";i:17;s:0:"";i:18;s:15:"View Structure
";}}