About
Search
Advanced Search
Genomes
Predict
About us
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
970236-970411
(+)
lysine
970545-971898 (+)
Ssed_0817
Aspartokinase
Ssed_0817
Single gene
DOOR ID:
2135881
Ssed_0817
View Structure
2
1715988-1716207
(+)
lysine
1716288-1717854 (+)
Ssed_1447
Na+/H+ antiporter NhaC
Ssed_1447
Single gene
DOOR ID:
2136244
Ssed_1447
View Structure
3
2436383-2436481
(+)
TPP
2436681-2438640 (+)
Ssed_2013
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Ssed_2013
Operon
DOOR ID:
354624
Ssed_2013,
Ssed_2014,
Ssed_2015,
Ssed_2016,
Ssed_2017,
Ssed_2018
(thiH)
View Structure
4
2521025-2521199
(+)
cobalamin
2521359-2522475 (+)
Ssed_2080
Cobalt-precorrin-5B C(1)-methyltransferase (95) (Cobalt-precorrin-6A synthase)
Ssed_2080
Operon
DOOR ID:
354635
Ssed_2080,
Ssed_2081,
Ssed_2082,
Ssed_2083,
Ssed_2084
View Structure
5
2533892-2534073
(+)
cobalamin
2534169-2534940 (+)
Ssed_2092
ABC cobalt transporter; periplasmic binding protein CbiN
Ssed_2092
Operon
DOOR ID:
354637
Ssed_2092,
Ssed_2093,
Ssed_2094,
Ssed_2095,
Ssed_2096
View Structure
6
2618849-2619020
(-)
cobalamin
2616831-2618682 (-)
Ssed_2165
TonB-dependent vitamin B12 receptor
Ssed_2165
Operon
DOOR ID:
354647
Ssed_2153,
Ssed_2154,
Ssed_2155,
Ssed_2156,
Ssed_2157,
Ssed_2158,
Ssed_2159,
Ssed_2160,
Ssed_2161,
Ssed_2162,
Ssed_2163,
Ssed_2164,
Ssed_2165
View Structure
7
3321673-3321792
(-)
TPP
3319396-3321607 (-)
Ssed_2752
TonB-dependent receptor
Ssed_2752
Single gene
DOOR ID:
2136958
Ssed_2752
View Structure
8
3858383-3858465
(+)
c-di-GMP-I
3858576-3861495 (+)
Ssed_3199
Uncharacterized protein
Ssed_3199
single gene
DOOR ID:
2137155
Ssed_3199
View Structure
9
4292527-4292626
(+)
purine
4292724-4293720 (+)
Ssed_3524
Adenosine deaminase (Adenosine aminohydrolase)
Ssed_3524
Single gene
DOOR ID:
2137365
Ssed_3524
View Structure
10
4340420-4340670
(-)
cobalamin
4338312-4340310 (-)
Ssed_3559
TonB-dependent receptor
Ssed_3559
Single gene
DOOR ID:
2137385
Ssed_3559
View Structure
11
4545052-4545247
(-)
cobalamin
4543807-4544743 (-)
Ssed_3736
ABC transporter-related protein
Ssed_3736
Operon
DOOR ID:
354904
Ssed_3735,
Ssed_3736
View Structure
12
4748508-4748671
(-)
glycine
4746968-4748348 (-)
Ssed_3886
Amino acid carrier protein
Ssed_3886
Single gene
DOOR ID:
2137599
Ssed_3886
View Structure
13
4812034-4812168
(+)
yybP-ykoY
4812221-4812836 (+)
Ssed_3939
Ssed_3939
Single gene
DOOR ID:
2137637
Ssed_3939
View Structure
14
5351782-5352057
(+)
FMN
5352237-5352891 (+)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
Ssed_4372
Single gene
DOOR ID:
2137856
Ssed_4372
(ribB)
View Structure
15
5381473-5381607
(-)
MOCO
5379796-5380321 (-)
Ssed_4401
Molybdenum cofactor biosynthesis protein B
Ssed_4401
Operon
DOOR ID:
355008
Ssed_4395,
Ssed_4396,
Ssed_4397,
Ssed_4398,
Ssed_4399,
Ssed_4400
(moaC)
,
Ssed_4401
View Structure
Genome:
Shewanella sediminis HAW-EB3
(
NC_009831.1
);
Phylum:
Gammaproteobacteria
a:16:{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_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"970236-970411";i:6;s:1:"+";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:13:"970545-971898";i:10;s:1:"+";i:11;s:9:"Ssed_0817";i:12;s:14:"Aspartokinase ";i:13;s:9:"Ssed_0817";i:14;s:11:"Single gene";i:15;s:7:"2135881";i:16;s:9:"Ssed_0817";i:17;s:105:"lysine biosynthetic process via diaminopimelate [GO:0009089]; threonine biosynthetic process [GO:0009088]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1715988-1716207";i:6;s:1:"+";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"1716288-1717854";i:10;s:1:"+";i:11;s:9:"Ssed_1447";i:12;s:22:"Na+/H+ antiporter NhaC";i:13;s:9:"Ssed_1447";i:14;s:11:"Single gene";i:15;s:7:"2136244";i:16;s:9:"Ssed_1447";i:17;s:0:"";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2436383-2436481";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2436681-2438640";i:10;s:1:"+";i:11;s:9:"Ssed_2013";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:9:"Ssed_2013";i:14;s:6:"Operon";i:15;s:6:"354624";i:16;s:65:"Ssed_2013;Ssed_2014;Ssed_2015;Ssed_2016;Ssed_2017;Ssed_2018(thiH)";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2521025-2521199";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2521359-2522475";i:10;s:1:"+";i:11;s:9:"Ssed_2080";i:12;s:78:"Cobalt-precorrin-5B C(1)-methyltransferase (95) (Cobalt-precorrin-6A synthase)";i:13;s:9:"Ssed_2080";i:14;s:6:"Operon";i:15;s:6:"354635";i:16;s:49:"Ssed_2080;Ssed_2081;Ssed_2082;Ssed_2083;Ssed_2084";i:17;s:85:"cobalamin biosynthetic process [GO:0009236]; corrin biosynthetic process [GO:0046140]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2533892-2534073";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2534169-2534940";i:10;s:1:"+";i:11;s:9:"Ssed_2092";i:12;s:56:"ABC cobalt transporter; periplasmic binding protein CbiN";i:13;s:9:"Ssed_2092";i:14;s:6:"Operon";i:15;s:6:"354637";i:16;s:49:"Ssed_2092;Ssed_2093;Ssed_2094;Ssed_2095;Ssed_2096";i:17;s:0:"";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2618849-2619020";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2616831-2618682";i:10;s:1:"-";i:11;s:9:"Ssed_2165";i:12;s:35:"TonB-dependent vitamin B12 receptor";i:13;s:9:"Ssed_2165";i:14;s:6:"Operon";i:15;s:6:"354647";i:16;s:129:"Ssed_2153;Ssed_2154;Ssed_2155;Ssed_2156;Ssed_2157;Ssed_2158;Ssed_2159;Ssed_2160;Ssed_2161;Ssed_2162;Ssed_2163;Ssed_2164;Ssed_2165";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3321673-3321792";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"3319396-3321607";i:10;s:1:"-";i:11;s:9:"Ssed_2752";i:12;s:23:"TonB-dependent receptor";i:13;s:9:"Ssed_2752";i:14;s:11:"Single gene";i:15;s:7:"2136958";i:16;s:9:"Ssed_2752";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3858383-3858465";i:6;s:1:"+";i:7;s:10:"c-di-GMP-I";i:8;s:0:"";i:9;s:15:"3858576-3861495";i:10;s:1:"+";i:11;s:9:"Ssed_3199";i:12;s:23:"Uncharacterized protein";i:13;s:9:"Ssed_3199";i:14;s:11:"single gene";i:15;s:7:"2137155";i:16;s:9:"Ssed_3199";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4292527-4292626";i:6;s:1:"+";i:7;s:6:"purine";i:8;s:0:"";i:9;s:15:"4292724-4293720";i:10;s:1:"+";i:11;s:9:"Ssed_3524";i:12;s:47:"Adenosine deaminase (Adenosine aminohydrolase)";i:13;s:9:"Ssed_3524";i:14;s:11:"Single gene";i:15;s:7:"2137365";i:16;s:9:"Ssed_3524";i:17;s:112:"nucleotide metabolic process [GO:0009117]; purine ribonucleoside monophosphate biosynthetic process [GO:0009168]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4340420-4340670";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4338312-4340310";i:10;s:1:"-";i:11;s:9:"Ssed_3559";i:12;s:23:"TonB-dependent receptor";i:13;s:9:"Ssed_3559";i:14;s:11:"Single gene";i:15;s:7:"2137385";i:16;s:9:"Ssed_3559";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4545052-4545247";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4543807-4544743";i:10;s:1:"-";i:11;s:9:"Ssed_3736";i:12;s:31:"ABC transporter-related protein";i:13;s:9:"Ssed_3736";i:14;s:6:"Operon";i:15;s:6:"354904";i:16;s:19:"Ssed_3735;Ssed_3736";i:17;s:0:"";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4748508-4748671";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"4746968-4748348";i:10;s:1:"-";i:11;s:9:"Ssed_3886";i:12;s:26:"Amino acid carrier protein";i:13;s:9:"Ssed_3886";i:14;s:11:"Single gene";i:15;s:7:"2137599";i:16;s:9:"Ssed_3886";i:17;s:0:"";i:18;s:15:"View Structure ";}i:13;a:19:{i:0;i:13;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4812034-4812168";i:6;s:1:"+";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"4812221-4812836";i:10;s:1:"+";i:11;s:9:"Ssed_3939";i:12;s:0:"";i:13;s:9:"Ssed_3939";i:14;s:11:"Single gene";i:15;s:7:"2137637";i:16;s:9:"Ssed_3939";i:17;s:0:"";i:18;s:15:"View Structure ";}i:14;a:19:{i:0;i:14;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"5351782-5352057";i:6;s:1:"+";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"5352237-5352891";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:"Ssed_4372";i:14;s:11:"Single gene";i:15;s:7:"2137856";i:16;s:15:"Ssed_4372(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}i:15;a:19:{i:0;i:15;i:1;s:11:"NC_009831.1";i:2;s:29:"Shewanella sediminis HAW-EB3 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"5381473-5381607";i:6;s:1:"-";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:15:"5379796-5380321";i:10;s:1:"-";i:11;s:9:"Ssed_4401";i:12;s:42:"Molybdenum cofactor biosynthesis protein B";i:13;s:9:"Ssed_4401";i:14;s:6:"Operon";i:15;s:6:"355008";i:16;s:75:"Ssed_4395;Ssed_4396;Ssed_4397;Ssed_4398;Ssed_4399;Ssed_4400(moaC);Ssed_4401";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}}
