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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
HIT:
1 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.148500 (101 seq.)
>W1710860513
LMCY01000002
Betaproteobacteria
Massilia sp. Root335 [LMCY]
92014
91938
-
Pro
TGG
[ENA]
¡û
>W1710860639
LMDB01000002
Betaproteobacteria
Duganella sp. Root336D2 [LMDB]
53696
53772
+
Pro
TGG
[ENA]
¡û
>W1710863116
LMEW01000012
Betaproteobacteria
Massilia sp. Root133 [LMEW]
510226
510302
+
Pro
TGG
[ENA]
¡û
>W1710864601
LMFZ01000034
Betaproteobacteria
Duganella sp. Root1480D1 [LMFZ]
2701
2625
-
Pro
TGG
[ENA]
¡û
>W1710864696
LMGB01000038
Betaproteobacteria
Massilia sp. Root1485 [LMGB]
300155
300231
+
Pro
TGG
[ENA]
¡û
>W1710867238
LMIC01000034
Betaproteobacteria
Duganella sp. Root198D2 [LMIC]
60123
60199
+
Pro
TGG
[ENA]
¡û
>W1710934477
LOJI01000035
Betaproteobacteria
Polynucleobacter yangtzensis [LOJI]
142315
142239
-
Pro
TGG
[ENA]
¡û
>W1710934499
LOJJ01000003
Betaproteobacteria
Polynucleobacter sinensis [LOJJ]
163247
163323
+
Pro
TGG
[ENA]
¡û
>W1711147356
LVJO01000001
Betaproteobacteria
Polynucleobacter asymbioticus [LVJO]
1006150
1006074
-
Pro
TGG
[ENA]
¡û
>W1711149065
LVLD01000007
Betaproteobacteria
Polynucleobacter asymbioticus P1-KOL8 [LVLD]
653187
653111
-
Pro
TGG
[ENA]
¡û
>W1711149101
LVLE01000005
Betaproteobacteria
Polynucleobacter asymbioticus [LVLE]
687408
687332
-
Pro
TGG
[ENA]
¡û
>W1711149138
LVLF01000005
Betaproteobacteria
Polynucleobacter asymbioticus [LVLF]
443677
443601
-
Pro
TGG
[ENA]
¡û
>W1711149175
LVLG01000001
Betaproteobacteria
Polynucleobacter asymbioticus [LVLG]
1137044
1136968
-
Pro
TGG
[ENA]
¡û
>W1711272429
LZFI01000002
Betaproteobacteria
Polynucleobacter sp. MWH-Adler-W8 [LZFI]
404702
404626
-
Pro
TGG
[ENA]
¡û
>W1711281996
LZMQ01000003
Betaproteobacteria
Polynucleobacter sp. QLW-P1DATA-2 [LZMQ]
523083
523007
-
Pro
TGG
[ENA]
¡û
>W1711282042
LZMR01000004
Betaproteobacteria
Polynucleobacter sp. MWH-Tro8-2-5-gr [LZMR]
545577
545501
-
Pro
TGG
[ENA]
¡û
>W1711409678
MGPB01000005
Betaproteobacteria
Curvibacter sp. GWA2_63_95 [MGPB]
16538
16614
+
Pro
TGG
[ENA]
¡û
>W1711421594
MHZG01000002
Betaproteobacteria
Polynucleobacter sp. GWA2_45_21 [MHZG]
304952
305028
+
Pro
TGG
[ENA]
¡û
>W1711625764
MPIY01000001
Betaproteobacteria
Polynucleobacter sphagniphilus MWH-Weng1-1 [MPIY]
414240
414316
+
Pro
TGG
[ENA]
¡û
>W1711767638
MVAD01000001
Betaproteobacteria
Massilia sp. KIM [MVAD]
2026430
2026354
-
Pro
TGG
[ENA]
¡û
>W1711932815
NAIA01000003
Betaproteobacteria
Polynucleobacter hirudinilacicola MWH-EgelM1-30-B4 [NAIA]
856404
856328
-
Pro
TGG
[ENA]
¡û
>W1712077022
NGUO01000008
Betaproteobacteria
Polynucleobacter aenigmaticus MWH-K35W1 [NGUO]
33785
33861
+
Pro
TGG
[ENA]
¡û
>W1712077067
NGUP01000003
Betaproteobacteria
Polynucleobacter campilacus MWH-Feld-100 [NGUP]
5589
5513
-
Pro
TGG
[ENA]
¡û
>C171035130
CP015016
Betaproteobacteria
Polynucleobacter asymbioticus MWH-RechtKolB [CP015016]
1161926
1161850
-
Pro
TGG
-
¡û
>C171035168
CP015017
Betaproteobacteria
Polynucleobacter asymbioticus MWH-RechtKol4 [CP015017]
1180759
1180683
-
Pro
TGG
-
¡û
>C171035206
CP015018
Betaproteobacteria
Polynucleobacter asymbioticus Tro8F10W22 [CP015018]
1096755
1096679
-
Pro
TGG
-
¡û
>C171088500
CP019038
Betaproteobacteria
Massilia putida 6NM-7 [CP019038]
6239464
6239540
+
Pro
TGG
-
¡û
>W131220819
ATZV01000064
Betaproteobacteria
beta proteobacterium SCGC AAA027-C02 [ATZV]
33427
33503
+
Pro
TGG
[ENA]
¡û
>W131225132
AUDI01000006
Betaproteobacteria
Pseudoduganella violaceinigra DSM 15887 [AUDI]
181834
181758
-
Pro
TGG
[ENA]
¡û
>W131237822
AUSC01000123
Betaproteobacteria
Oxalobacteraceae bacterium JGI 001010-B17 [AUSC]
8945
8869
-
Pro
TGG
[ENA]
¡û
>C017397
CP000655
Betaproteobacteria
Polynucleobacter asymbioticus QLW-P1DMWA-1 [CP000655]
1006150
1006074
-
Pro
TGG
[Ensembl]
¡û
>WENV180020643
FTCZ01007816
[FTCZ] metagenome; soil
2397
2473
+
Pro
TGG
[ENA]
¢þ
>WENV180111472
OAPN01089277
[OAPN] marine metagenome; 2011
120
196
+
Pro
TGG
[ENA]
¢þ
>WENV180377735
OBON01105564
[OBON] marine metagenome; sea water
155
231
+
Pro
TGG
[ENA]
¢þ
>WENV180391105
OBPM01010274
[OBPM] marine metagenome; ENVO:00002010
481
557
+
Pro
TGG
[ENA]
¢þ
>WENV180393102
OBPP01074498
[OBPP] marine metagenome; ENVO:00002042
145
69
-
Pro
TGG
[ENA]
¢þ
>WENV181367410
OFQB01000509
[OFQB] freshwater metagenome; Freshwater Lake
2139
2215
+
Pro
TGG
[ENA]
¢þ
>WENV181368184
OFQK01001661
[OFQK] freshwater metagenome; Freshwater Lake
758
682
-
Pro
TGG
[ENA]
¢þ
>WENV181368353
OFQL01001069
[OFQL] freshwater metagenome; Freshwater Lake
900
824
-
Pro
TGG
[ENA]
¢þ
>WENV181368813
OFQN01000812
[OFQN] freshwater metagenome; Freshwater Lake
3923
3847
-
Pro
TGG
[ENA]
¢þ
>WENV181369271
OFQP01000059
[OFQP] freshwater metagenome; Freshwater Lake
3962
3886
-
Pro
TGG
[ENA]
¢þ
>WENV181369875
OFQR01001241
[OFQR] freshwater metagenome; Freshwater Lake
2189
2265
+
Pro
TGG
[ENA]
¢þ
>WENV181370179
OFQS01000292
[OFQS] freshwater metagenome; Freshwater Lake
6743
6819
+
Pro
TGG
[ENA]
¢þ
>WENV181370587
OFQT01000501
[OFQT] freshwater metagenome; Freshwater Lake
3919
3843
-
Pro
TGG
[ENA]
¢þ
>WENV181395688
OFSB01000341
[OFSB] freshwater metagenome; Freshwater Lake
2475
2551
+
Pro
TGG
[ENA]
¢þ
>WENV181839167
OGVN01079344
[OGVN] freshwater metagenome; freshwater
277
201
-
Pro
TGG
[ENA]
¢þ
>WENV181844096
OGVV01009025
[OGVV] freshwater metagenome; freshwater
785
861
+
Pro
TGG
[ENA]
¢þ
>WENV181849014
OGVZ01041631
[OGVZ] freshwater metagenome; freshwater
383
307
-
Pro
TGG
[ENA]
¢þ
>WENV181854046
OGWJ01006730
[OGWJ] freshwater metagenome; freshwater
748
672
-
Pro
TGG
[ENA]
¢þ
>WENV181856617
OGWN01005618
[OGWN] freshwater metagenome; freshwater
1037
1113
+
Pro
TGG
[ENA]
¢þ
>W141241336
CAHF01000011
Betaproteobacteria
Noviherbaspirillum massiliense JC206 [CAHF]
647875
647799
-
Pro
TGG
[ENA]
¡û
>C08007619
CP001010
Betaproteobacteria
Polynucleobacter necessarius [CP001010]
741670
741746
+
Pro
TGG
[Ensembl]
¡û
>WENV170142099
CENX01370055
[CENX] marine metagenome genome assembly TARA_018_DCM_0.22-1.6 ,contig; saline water (ENVO:00002010), including plankton (ENVO:xxxxxxxx)
107
183
+
Pro
TGG
[ENA]
¢þ
>WENV170575228
FLYN01045969
[FLYN] hot springs metagenome; Sediment
95
171
+
Pro
TGG
[ENA]
¢þ
>WENV170599730
FUWD010088955
[FUWD] metagenome; unknown
646
570
-
Pro
TGG
[ENA]
¢þ
>WENV170617406
FUWD012925174
[FUWD] metagenome; unknown
480
404
-
Pro
TGG
[ENA]
¢þ
>WENV170617408
FUWD012925175
[FUWD] metagenome; unknown
194
118
-
Pro
TGG
[ENA]
¢þ
>WENV170619936
FUWD013023157
[FUWD] metagenome; unknown
91
15
-
Pro
TGG
[ENA]
¢þ
>WENV170628059
FUWD013241254
[FUWD] metagenome; unknown
91
15
-
Pro
TGG
[ENA]
¢þ
>WENV170705687
LNAP01000128
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
146765
146689
-
Pro
TGG
[ENA]
¢þ
>WENV170865020
MDTB01113646
[MDTB] marine metagenome; seawater
5978
5902
-
Pro
TGG
[ENA]
¢þ
>C181078379
CP023276
Betaproteobacteria
Polynucleobacter difficilis AM-8B5 [CP023276]
787467
787543
+
Pro
TGG
-
¡û
>C181187692
CP030086
Betaproteobacteria
Polynucleobacter paneuropaeus MWH-Creno-4B4 [CP030086]
930700
930624
-
Pro
TGG
-
¡û
>C181218870
LT606946
Betaproteobacteria
Polynucleobacter necessarius [LT606946]
740361
740437
+
Pro
TGG
-
¡û
>C181218905
LT606947
Betaproteobacteria
Polynucleobacter necessarius [LT606947]
464725
464801
+
Pro
TGG
-
¡û
>C181218964
LT606949
Betaproteobacteria
Polynucleobacter necessarius [LT606949]
855709
855633
-
Pro
TGG
-
¡û
>C181218999
LT606950
Betaproteobacteria
Polynucleobacter necessarius [LT606950]
704235
704159
-
Pro
TGG
-
¡û
>C181219019
LT606951
Betaproteobacteria
Polynucleobacter necessarius [LT606951]
980110
980186
+
Pro
TGG
-
¡û
>C181219067
LT615227
Betaproteobacteria
Polynucleobacter necessarius [LT615227]
1547597
1547521
-
Pro
TGG
-
¡û
>C181219110
LT615228
Betaproteobacteria
Polynucleobacter necessarius [LT615228]
635449
635373
-
Pro
TGG
-
¡û
>W09106284
AAUC01000004
Betaproteobacteria
Polynucleobacter asymbioticus QLW-P1DMWA-1 [AAUC]
135158
135082
-
Pro
TGG
[ENA]
¡û
>W09107514
ABJA01000001
Betaproteobacteria
Polynucleobacter necessarius STIR1 [ABJA]
851878
851802
-
Pro
TGG
[ENA]
¡û
>W141821344
JQNN01000001
Betaproteobacteria
Massilia sp. 9096 [JQNN]
832367
832443
+
Pro
TGG
[ENA]
¡û
>C141003793
CP004348
Betaproteobacteria
beta proteobacterium CB [CP004348]
803730
803806
+
Pro
TGG
[Ensembl]
¡û
>W1911139397
NOXW01000020
Betaproteobacteria
Rhodoferax sp. TH121 [NOXW]
447397
447473
+
Pro
TGG
[ENA]
¡û
>W1911490762
OANS01000005
Betaproteobacteria
Polynucleobacter meluiroseus AP-Melu-1000-B4 [OANS]
133597
133673
+
Pro
TGG
[ENA]
¡û
>W1911802726
QYUN01000002
Betaproteobacteria
Noviherbaspirillum cavernae K2R10-39 [QYUN]
1347106
1347182
+
Pro
TGG
[ENA]
¡û
>W1810102016
PGTX01000005
Betaproteobacteria
Polynucleobacter brandtiae UB-Domo-W1 [PGTX]
1469
1393
-
Pro
TGG
[ENA]
¡û
>W1810305897
PTQY01000001
Betaproteobacteria
Rhodoferax sp. TS-BS-61-7 [PTQY]
387228
387152
-
Pro
TGG
[ENA]
¡û
>W1810330131
PUIP01000007
Betaproteobacteria
Massilia phosphatilytica 12-OD1 [PUIP]
8257
8181
-
Pro
TGG
[ENA]
¡û
>W1810659420
QJKB01000001
Betaproteobacteria
Undibacterium pigrum DSM 19792 [QJKB]
1397384
1397460
+
Pro
TGG
[ENA]
¡û
>W1810659421
QJKB01000001
Betaproteobacteria
Undibacterium pigrum DSM 19792 [QJKB]
1397562
1397638
+
Pro
TGG
[ENA]
¡û
>W1810699149
QMCG01000001
Betaproteobacteria
Polynucleobacter paneuropaeus MWH-UK1W16 [QMCG]
1374280
1374204
-
Pro
TGG
[ENA]
¡û
>W1810699196
QMCH01000003
Betaproteobacteria
Polynucleobacter paneuropaeus FUKU-NW-11 [QMCH]
637610
637534
-
Pro
TGG
[ENA]
¡û
>C151025647
CP007501
Betaproteobacteria
Polynucleobacter duraquae MWH-MoK4 [CP007501]
809280
809356
+
Pro
TGG
[Ensembl]
¡û
>W1511310193
JPQD01000013
Betaproteobacteria
Massilia sp. JS1662 [JPQD]
63636
63560
-
Pro
TGG
[ENA]
¡û
>W1511657402
LELH02000003
Betaproteobacteria
Massilia sp. WF1 [LELH]
3715
3791
+
Pro
TGG
[ENA]
¡û
>C161043167
CP012640
Betaproteobacteria
Massilia sp. WG5 [CP012640]
2460577
2460653
+
Pro
TGG
-
¡û
>C161092376
CP015922
Betaproteobacteria
Polynucleobacter wuianus QLW-P1FAT50C-4 [CP015922]
966016
966092
+
Pro
TGG
[Ensembl]
¡û
>WENV057509
AACY023297084
Marine microbial communities from Global Ocean Sampling (GOS)
896
974
+
Pro
TGG
[ENA]
>WENV057825
AACY023307996
Marine microbial communities from Global Ocean Sampling (GOS)
1082
1160
+
Pro
TGG
[ENA]
>W1610722859
LMCY01000002
Betaproteobacteria
Massilia sp. Root335 [LMCY]
92014
91938
-
Pro
TGG
[ENA]
¡û
>W1610722985
LMDB01000002
Betaproteobacteria
Duganella sp. Root336D2 [LMDB]
53696
53772
+
Pro
TGG
[ENA]
¡û
>W1610725462
LMEW01000012
Betaproteobacteria
Massilia sp. Root133 [LMEW]
510226
510302
+
Pro
TGG
[ENA]
¡û
>W1610726947
LMFZ01000034
Betaproteobacteria
Duganella sp. Root1480D1 [LMFZ]
2701
2625
-
Pro
TGG
[ENA]
¡û
>W1610727042
LMGB01000038
Betaproteobacteria
Massilia sp. Root1485 [LMGB]
300155
300231
+
Pro
TGG
[ENA]
¡û
>W1610729584
LMIC01000034
Betaproteobacteria
Duganella sp. Root198D2 [LMIC]
60123
60199
+
Pro
TGG
[ENA]
¡û
>W1610792008
LOJI01000035
Betaproteobacteria
Polynucleobacter yangtzensis [LOJI]
142315
142239
-
Pro
TGG
[ENA]
¡û
>W1610792030
LOJJ01000003
Betaproteobacteria
Polynucleobacter sinensis [LOJJ]
163247
163323
+
Pro
TGG
[ENA]
¡û
>W1710512852
FMZS01000010
Betaproteobacteria
Massilia sp. PDC64 [FMZS]
18701
18777
+
Pro
TGG
[ENA]
¡û
>W1710561505
FOOF01000005
Betaproteobacteria
Duganella sp. CF458 [FOOF]
321685
321761
+
Pro
TGG
[ENA]
¡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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