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tRNADB-CE
: tRNA gene database curated manually by experts
Takashi Abe
1
, Toshimichi Ikemura
2
, Junichi Sugahara
3
, Akio Kanai
3
, Yasuo Ohara
2
, Hiroshi Uehara
2
, Makoto Kinouchi
4
,
Shigehiko Kanaya
5
, Yuko Yamada
2
, Akira Muto
6
, Hachiro Inokuchi
2
1
. Niigata Univ.,
2
. Nagahama Inst. of Bio-Sci. and Tech.,
3
. Keio Univ.,
4
. Yamagata Univ.,
5
. NAIST,
6
. Hirosaki Univ.
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Keyword
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BLAST
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HOW TO USE
tRNA genes clustered and arranged according to each identical group
Hydrogenophilia
Anticodon = TCT
HIT:
4 Group(s).
Download Sequence
Representative sequence of each cluster
View ClustalW result
Sort by Identical group No.
Sort by the number of tRNAs in the Identical group
Select
Sequence ID
Genome ID
(or Accession No.)
Phylum/Class
(Sample source for ENV)
Species
Start
End
Direction
AA
Anticodon
Genome/Seq. Info.
Decision
Identical group No.270857 (64 seq.)
>W1710893299
LNEP01000005
Betaproteobacteria
Betaproteobacteria bacterium Ga0077540 [LNEP]
42666
42590
-
Arg
TCT
[ENA]
¡û
>W1711224663
LXUF01000011
Betaproteobacteria
Methylovorus sp. MM2 MM1 [LXUF]
551215
551139
-
Arg
TCT
[ENA]
¡û
>W1711414497
MGZO01000020
Hydrogenophilia
Hydrogenophilales bacterium RIFOXYD1_FULL_62_11 [MGZO]
31899
31823
-
Arg
TCT
[ENA]
¡û
>W1711680556
MRWL01000383
Betaproteobacteria
Sulfuricella sp. BIN3 [MRWL]
872
948
+
Arg
TCT
[ENA]
¡û
>C171116296
CP021138
Betaproteobacteria
Sulfuriferula sp. AH1 [CP021138]
1996459
1996535
+
Arg
TCT
-
¡û
>W131164749
ARBA01000003
Betaproteobacteria
Methylotenera mobilis 13 [ARBA]
660226
660150
-
Arg
TCT
[ENA]
¡û
>W131186395
ARWC01000001
Betaproteobacteria
Methylotenera sp. 1P/1 [ARWC]
2049302
2049378
+
Arg
TCT
[ENA]
¡û
>W131214596
ATUI01000001
Betaproteobacteria
Rubrivivax benzoatilyticus JA2 = ATCC BAA-35 [ATUI]
433
509
+
Arg
TCT
[ENA]
¡û
>C013372
CP000284
Betaproteobacteria
Methylobacillus flagellatus KT [CP000284]
80072
80148
+
Arg
TCT
[Ensembl]
¡û
>WENV180099061
MTBK01284931
[MTBK] anaerobic digester metagenome; biogas reactors fed with pig manure or primary and secondary sludge
1342
1418
+
Arg
TCT
[ENA]
¢þ
>WENV180252618
OBEQ010464439
[OBEQ] groundwater metagenome; groundwater
4064
3988
-
Arg
TCT
[ENA]
¢þ
>WENV180268760
OBEQ012000275
[OBEQ] groundwater metagenome; groundwater
607
683
+
Arg
TCT
[ENA]
¢þ
>WENV181189050
OEOF01000037
[OEOF] activated sludge metagenome; Activated Sludge
13346
13422
+
Arg
TCT
[ENA]
¢þ
>WENV181222620
OFDC01000032
[OFDC] hot springs metagenome; Water
185550
185474
-
Arg
TCT
[ENA]
¢þ
>WENV181384225
OFRH01039095
[OFRH] wastewater metagenome; Exp Tend NO 100WW
225
301
+
Arg
TCT
[ENA]
¢þ
>WENV181835512
OGVI01002081
[OGVI] freshwater metagenome; freshwater
487
563
+
Arg
TCT
[ENA]
¢þ
>WENV181843210
OGVU01003267
[OGVU] freshwater metagenome; freshwater
195
271
+
Arg
TCT
[ENA]
¢þ
>W141229542
BAMT01000006
Betaproteobacteria
Methylobacillus glycogenes JCM 2850 [BAMT]
10780
10856
+
Arg
TCT
[ENA]
¡û
>W141350136
JCKJ01000001
Betaproteobacteria
Methylophilaceae bacterium 11 [JCKJ]
120219
120295
+
Arg
TCT
[ENA]
¡û
>WENV183683922
ORMF010638506
[ORMF] groundwater metagenome; groundwater
90914
90838
-
Arg
TCT
[ENA]
¢þ
>WENV183726884
PJTO01000354
[PJTO] soil metagenome; Soil (3) enriched on wood chips: beechwood xylan treatment
15541
15465
-
Arg
TCT
[ENA]
¢þ
>WENV183729443
PJTQ01040042
[PJTQ] soil metagenome; Soil (3) enriched on wood chips
594
518
-
Arg
TCT
[ENA]
¢þ
>WENV183736826
PJUD01000046
[PJUD] feces metagenome; Chicken feces (3) enriched on wood chips: beechwood xylan treatment
186119
186043
-
Arg
TCT
[ENA]
¢þ
>WENV183739359
PJUE01010561
[PJUE] feces metagenome; Chicken feces (3) enriched on wood chips: alkali lignin treatment
360
284
-
Arg
TCT
[ENA]
¢þ
>WENV183740517
PJUF01003002
[PJUF] feces metagenome; Chicken feces (3) enriched on wood chips
2804
2880
+
Arg
TCT
[ENA]
¢þ
>WENV170558763
CXWL01088777
[CXWL] groundwater metagenome; biofilm material
1877
1953
+
Arg
TCT
[ENA]
¢þ
>WENV170577505
FSSH01000094
[FSSH] freshwater metagenome; drinking water
10769
10845
+
Arg
TCT
[ENA]
¢þ
>WENV170705461
LNAO01000611
[LNAO] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
1400
1324
-
Arg
TCT
[ENA]
¢þ
>WENV170705719
LNAP01000146
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
3946
4022
+
Arg
TCT
[ENA]
¢þ
>WENV170706489
LNAP01003533
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
14913
14837
-
Arg
TCT
[ENA]
¢þ
>WENV170708648
LNAP01100863
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
207
283
+
Arg
TCT
[ENA]
¢þ
>WENV170710439
LNFM01001749
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
10955
11031
+
Arg
TCT
[ENA]
¢þ
>WENV170961611
MLJW01000232
[MLJW] mine drainage metagenome; sample collected from the inflow into an acid mine drainage treatment plant; enriched for
30749
30673
-
Arg
TCT
[ENA]
¢þ
>WENV170961722
MLJW01000675
[MLJW] mine drainage metagenome; sample collected from the inflow into an acid mine drainage treatment plant; enriched for
7732
7656
-
Arg
TCT
[ENA]
¢þ
>WENV022999
AACY020690357
Marine microbial communities from Global Ocean Sampling (GOS)
133
211
+
Arg
TCT
[ENA]
>W09101014
AADX02000005
Betaproteobacteria
Methylobacillus flagellatus KT [AADX]
156517
156441
-
Arg
TCT
[ENA]
¡û
>W141819352
JQMG01000001
Betaproteobacteria
Methylotenera sp. L2L1 [JQMG]
1091328
1091404
+
Arg
TCT
[ENA]
¡û
>W1910015377
BDOQ01000003
Betaproteobacteria
Novimethylophilus kurashikiensis La2-4 [BDOQ]
335497
335573
+
Arg
TCT
[ENA]
¡û
>W1910126416
BGOW01000006
Betaproteobacteria
Sulfuriferula multivorans TTN [BGOW]
77695
77619
-
Arg
TCT
[ENA]
¡û
>W1910128282
BHGL01000002
Betaproteobacteria
Sulfuriferula thiophila mst6 [BHGL]
3269
3193
-
Arg
TCT
[ENA]
¡û
>C09107553
CP001674
Betaproteobacteria
Methylovorus glucosotrophus SIP3-4 [CP001674]
90915
90991
+
Arg
TCT
[Ensembl]
¡û
>C09107780
CP001672
Betaproteobacteria
Methylotenera mobilis JLW8 [CP001672]
239476
239552
+
Arg
TCT
[Ensembl]
¡û
>C141000195
AP013066
Betaproteobacteria
Sulfuricella denitrificans skB26 [AP013066]
1427416
1427340
-
Arg
TCT
[Ensembl]
¡û
>W1910547764
FZOA01000010
Betaproteobacteria
Methylobacillus rhizosphaerae Ca-68 [FZOA]
10951
11027
+
Arg
TCT
[ENA]
¡û
>W1910698918
MEQR01000049
Betaproteobacteria
Betaproteobacteria bacterium RBG_19FT_COMBO_58_11 [MEQR]
13489
13413
-
Arg
TCT
[ENA]
¡û
>W1910730012
MHBT01000090
Betaproteobacteria
Methylophilales bacterium RIFCSPHIGHO2_02_FULL_57_10 [MHBT]
8877
8953
+
Arg
TCT
[ENA]
¡û
>W1911623997
PQVH01000010
Betaproteobacteria
Methylotenera oryzisoli La3113 [PQVH]
99276
99200
-
Arg
TCT
[ENA]
¡û
>C151104060
LN794158
Betaproteobacteria
Candidatus Methylopumilus turicensis MMS-10A-171 [LN794158]
58355
58431
+
Arg
TCT
[Ensembl]
¡û
>ENV09000759
ABSP01031374
Freshwater sediment metagenome lwMethane_C1
497
573
+
Arg
TCT
[ENA]
¡û
>ENV09001305
ABSR01000873
Freshwater sediment metagenome lwMethylamine_C1
1188
1112
-
Arg
TCT
[ENA]
¡û
>ENV09001349
ABSR01002410
Freshwater sediment metagenome lwMethylamine_C1
850
926
+
Arg
TCT
[ENA]
¡û
>ENV09001425
ABSR01006578
Freshwater sediment metagenome lwMethylamine_C1
907
831
-
Arg
TCT
[ENA]
¡û
>ENV09001534
ABSR01025017
Freshwater sediment metagenome lwMethylamine_C1
191
267
+
Arg
TCT
[ENA]
¡û
>W1510019319
BBWF01000017
Betaproteobacteria
Sulfuricella sp. T08 [BBWF]
52339
52415
+
Arg
TCT
[ENA]
¡û
>C11114188
CP002252
Betaproteobacteria
Methylovorus sp. MP688 [CP002252]
90916
90992
+
Arg
TCT
[Ensembl]
¡û
>W1511431981
JUGE01000001
Betaproteobacteria
Methylotenera sp. N17 [JUGE]
2581753
2581829
+
Arg
TCT
[ENA]
¡û
>W1511432015
JUGF01000002
Betaproteobacteria
Methylotenera versatilis 7 [JUGF]
838470
838546
+
Arg
TCT
[ENA]
¡û
>W1511433552
JUHH01000001
Betaproteobacteria
Methylotenera sp. G11 [JUHH]
1727661
1727585
-
Arg
TCT
[ENA]
¡û
>W11150917
AEWG01000034
Betaproteobacteria
Rubrivivax benzoatilyticus JA2 [AEWG]
21644
21568
-
Arg
TCT
[ENA]
¡û
>WENV058116
AACY023318188
Marine microbial communities from Global Ocean Sampling (GOS)
1132
1054
-
Arg
TCT
[ENA]
>W121060099
AJFF01000113
Betaproteobacteria
Rubrivivax gelatinosus CBS [AJFF]
2195
2271
+
Arg
TCT
[ENA]
¡û
>W121124625
BAFJ01000005
Betaproteobacteria
Sulfuricella denitrificans skB26 [BAFJ]
275985
276061
+
Arg
TCT
[ENA]
¡û
>W1610753565
LNEP01000005
Betaproteobacteria
Betaproteobacteria bacterium Ga0077540 [LNEP]
42666
42590
-
Arg
TCT
[ENA]
¡û
>W1611008627
LXUF01000011
Betaproteobacteria
Methylovorus sp. MM2 MM1 [LXUF]
551215
551139
-
Arg
TCT
[ENA]
¡û
Identical group No.318303 (6 seq.)
>W1711583414
MNXE01000017
Hydrogenophilia
Hydrogenophilaceae bacterium CG1_02_62_390 [MNXE]
3315
3239
-
Arg
TCT
[ENA]
¡û
>WENV180037770
FVAA011683302
[FVAA] soil metagenome; Soil
77
1
-
Arg
TCT
[ENA]
¢þ
>WENV180297515
OBJA01038512
[OBJA] soil metagenome; sediment, water from around vicinity
629
553
-
Arg
TCT
[ENA]
¢þ
>WENV170639308
JFJP01001836
[JFJP] microbial mat metagenome; purple microbial (photo- and chemosynthetic) mats found in low-oxygen high-sulfur sink
621
545
-
Arg
TCT
[ENA]
¢þ
>WENV170651705
JRYG01000640
[JRYG] activated sludge metagenome; activated biomass of a wastewater treatment plant treating hydrocarbon contaminated
15674
15750
+
Arg
TCT
[ENA]
¢þ
>C191004322
AP018721
Betaproteobacteria
Sulfuritortus calidifontis J1A [AP018721]
358962
359038
+
Arg
TCT
-
¡û
Identical group No.373894 (4 seq.)
>W131225581
AUDR01000016
Hydrogenophilia
Tepidiphilus margaritifer DSM 15129 [AUDR]
145019
144943
-
Arg
TCT
[ENA]
¡û
>W1510741374
CYHH01000006
Hydrogenophilia
Tepidiphilus thermophilus JCM 19170 [CYHH]
22312
22388
+
Arg
TCT
[ENA]
¡û
>W1610632375
LIPU01000006
Hydrogenophilia
Tepidiphilus thermophilus [LIPU]
22312
22388
+
Arg
TCT
[ENA]
¡û
>W1710766761
LIPU01000006
Hydrogenophilia
Tepidiphilus thermophilus [LIPU]
22312
22388
+
Arg
TCT
[ENA]
¡û
Identical group No.380050 (1 seq.)
>C191003426
AP018558
Hydrogenophilia
Hydrogenophilus thermoluteolus TH-1 [AP018558]
908816
908892
+
Arg
TCT
-
¡û
Select
Sequence ID
Genome ID
(or Accession No.)
Phylum/Class
(Sample source for ENV)
Species
Start
End
Direction
AA
Anticodon
Genome/Seq. Info.
Decision
Download Sequence
Representative sequence of each cluster
View ClustalW result
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