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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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BLAST
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HOW TO USE
tRNA genes clustered and arranged according to each identical group
Freshwater sediment metagenome lwFormaldehyde_C1
Anticodon = CCT
HIT:
13 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.302414 (34 seq.)
>W1710892782
LNEC01000019
Alphaproteobacteria
Bradyrhizobiaceae bacterium Ga0074131 [LNEC]
612573
612649
+
Arg
CCT
[ENA]
¡û
>W1711169170
LVYV01000001
Alphaproteobacteria
Tardiphaga robiniae [LVYV]
498907
498831
-
Arg
CCT
[ENA]
¡û
>W131226896
AUES01000019
Alphaproteobacteria
Bradyrhizobium sp. URHA0002 [AUES]
52873
52797
-
Arg
CCT
[ENA]
¡û
>W131228533
AUGA01000006
Alphaproteobacteria
Bradyrhizobium sp. th.b2 [AUGA]
300665
300741
+
Arg
CCT
[ENA]
¡û
>WENV180250676
OBEQ010303928
[OBEQ] groundwater metagenome; groundwater
1174
1250
+
Arg
CCT
[ENA]
¢þ
>WENV180268087
OBEQ011928811
[OBEQ] groundwater metagenome; groundwater
79
3
-
Arg
CCT
[ENA]
¢þ
>WENV180308474
OBJR01013812
[OBJR] soil metagenome; soil
306
230
-
Arg
CCT
[ENA]
¢þ
>WENV180344694
OBLL01120100
[OBLL] soil metagenome; soil
272
196
-
Arg
CCT
[ENA]
¢þ
>WENV180345042
OBLM01005239
[OBLM] soil metagenome; soil
97
21
-
Arg
CCT
[ENA]
¢þ
>WENV180695348
OCZS013357283
[OCZS] soil metagenome; soil
86
162
+
Arg
CCT
[ENA]
¢þ
>WENV181164645
OEIR01277127
[OEIR] soil metagenome; soil
185
109
-
Arg
CCT
[ENA]
¢þ
>WENV183676310
ORJL011608540
[ORJL] groundwater metagenome; groundwater
365
441
+
Arg
CCT
[ENA]
¢þ
>WENV170705922
LNAP01000622
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
22217
22141
-
Arg
CCT
[ENA]
¢þ
>WENV170709257
LNFM01000219
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
645212
645288
+
Arg
CCT
[ENA]
¢þ
>WENV170709775
LNFM01000686
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
48875
48951
+
Arg
CCT
[ENA]
¢þ
>WENV170961919
MLJW01006852
[MLJW] mine drainage metagenome; sample collected from the inflow into an acid mine drainage treatment plant; enriched for
191
267
+
Arg
CCT
[ENA]
¢þ
>WENV170974877
MTKY01079134
[MTKY] anaerobic digester metagenome; anaerobic digester fed with sludge from wastewater treatment plant
862
938
+
Arg
CCT
[ENA]
¢þ
>W1910548981
FZOX01000008
Alphaproteobacteria
Tardiphaga sp. OK246 [FZOX]
187000
186924
-
Arg
CCT
[ENA]
¡û
>W1810395573
PYCM01000750
Alphaproteobacteria
Bradyrhizobium algeriense RST89 [PYCM]
5457
5381
-
Arg
CCT
[ENA]
¡û
>W1810395580
PYCN01000001
Alphaproteobacteria
Bradyrhizobium algeriense RST91 [PYCN]
488240
488164
-
Arg
CCT
[ENA]
¡û
>W1810576936
QENW01000001
Alphaproteobacteria
Tardiphaga sp. OV697 [QENW]
948932
949008
+
Arg
CCT
[ENA]
¡û
>W1810784375
QRAQ01000002
Alphaproteobacteria
Tardiphaga sp. CF115 [QRAQ]
1791952
1792028
+
Arg
CCT
[ENA]
¡û
>ENV09000210
ABSN01030903
Freshwater sediment metagenome lwFormaldehyde_C1
547
471
-
Arg
CCT
[ENA]
¡û
>W1511533278
JYMR01000039
Alphaproteobacteria
Bradyrhizobium sp. LTSP849 [JYMR]
101514
101438
-
Arg
CCT
[ENA]
¡û
>W1511533300
JYMS01000018
Alphaproteobacteria
Bradyrhizobium sp. LTSP857 [JYMS]
44310
44386
+
Arg
CCT
[ENA]
¡û
>W1511533351
JYMT01000016
Alphaproteobacteria
Bradyrhizobium sp. LTSP885 [JYMT]
45418
45342
-
Arg
CCT
[ENA]
¡û
>W1511533408
JYMU01000018
Alphaproteobacteria
Bradyrhizobium sp. LTSPM299 [JYMU]
42269
42193
-
Arg
CCT
[ENA]
¡û
>W1610753048
LNEC01000019
Alphaproteobacteria
Bradyrhizobiaceae bacterium Ga0074131 [LNEC]
612573
612649
+
Arg
CCT
[ENA]
¡û
>W1610978965
LVYV01000001
Alphaproteobacteria
Tardiphaga robiniae [LVYV]
498907
498831
-
Arg
CCT
[ENA]
¡û
>W1710536646
FNTI01000001
Alphaproteobacteria
Bradyrhizobium lablabi [FNTI]
3117466
3117390
-
Arg
CCT
[ENA]
¡û
>W1710540664
FNWZ01000002
Alphaproteobacteria
Tardiphaga sp. OK245 [FNWZ]
185811
185735
-
Arg
CCT
[ENA]
¡û
>W1710545998
FOBX01000004
Alphaproteobacteria
Bradyrhizobium sp. OK095 [FOBX]
134713
134789
+
Arg
CCT
[ENA]
¡û
>W1710568441
FOTP01000006
Alphaproteobacteria
Bradyrhizobium sp. NFR13 [FOTP]
72053
71977
-
Arg
CCT
[ENA]
¡û
>W1710594244
FSRD01000001
Alphaproteobacteria
Bradyrhizobium erythrophlei [FSRD]
2288043
2288119
+
Arg
CCT
[ENA]
¡û
Identical group No.447020 (1 seq.)
>ENV09000185
ABSN01025978
Freshwater sediment metagenome lwFormaldehyde_C1
195
271
+
Arg
CCT
[ENA]
¡û
Identical group No.447033 (1 seq.)
>ENV09000317
ABSN01049581
Freshwater sediment metagenome lwFormaldehyde_C1
705
632
-
Arg
CCT
[ENA]
¡û
Identical group No.447035 (1 seq.)
>ENV09000342
ABSN01055812
Freshwater sediment metagenome lwFormaldehyde_C1
93
166
+
Arg
CCT
[ENA]
¡û
Identical group No.487516 (5 seq.)
>W1710892981
LNEH01000155
Verrucomicrobiota
Verrucomicrobia bacterium Ga0077533 [LNEH]
37685
37610
-
Arg
CCT
[ENA]
¡û
>WENV170556354
CXWL01007464
[CXWL] groundwater metagenome; biofilm material
9236
9311
+
Arg
CCT
[ENA]
¢þ
>WENV170712001
LNFM01009057
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
7331
7406
+
Arg
CCT
[ENA]
¢þ
>ENV09000446
ABSN01070009
Freshwater sediment metagenome lwFormaldehyde_C1
386
311
-
Arg
CCT
[ENA]
¡û
>W1610753247
LNEH01000155
Verrucomicrobiota
Verrucomicrobia bacterium Ga0077533 [LNEH]
37685
37610
-
Arg
CCT
[ENA]
¡û
Identical group No.648253 (1 seq.)
>ENV09000092
ABSN01007855
Freshwater sediment metagenome lwFormaldehyde_C1
308
233
-
Arg
CCT
[ENA]
¡û
Identical group No.648269 (1 seq.)
>ENV09000169
ABSN01022251
Freshwater sediment metagenome lwFormaldehyde_C1
146
221
+
Arg
CCT
[ENA]
¡û
Identical group No.648281 (1 seq.)
>ENV09000211
ABSN01031394
Freshwater sediment metagenome lwFormaldehyde_C1
427
502
+
Arg
CCT
[ENA]
¡û
Identical group No.674513 (4 seq.)
>WENV170577610
FSSH01000274
[FSSH] freshwater metagenome; drinking water
341693
341767
+
Arg
CCT
[ENA]
¢þ
>WENV170715012
LNFM01124995
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
13
87
+
Arg
CCT
[ENA]
¢þ
>SRA1052695
SRR035098.254151
454 Sequencing (SRP001819)
329
255
-
Arg
CCT
[SRA]
>ENV09000209
ABSN01030873
Freshwater sediment metagenome lwFormaldehyde_C1
700
774
+
Arg
CCT
[ENA]
¡û
Identical group No.738029 (2 seq.)
>WENV170003365
AGTN01313100
[AGTN] bioreactor metagenome; poplar biomass
182
253
+
Arg
CCT
[ENA]
¢þ
>ENV09000287
ABSN01044559
Freshwater sediment metagenome lwFormaldehyde_C1
42
113
+
Arg
CCT
[ENA]
¡û
Identical group No.776226 (1 seq.)
>ENV09000080
ABSN01006490
Freshwater sediment metagenome lwFormaldehyde_C1
690
762
+
Arg
CCT
[ENA]
¡û
Identical group No.776228 (1 seq.)
>ENV09000104
ABSN01011023
Freshwater sediment metagenome lwFormaldehyde_C1
118
44
-
Arg
CCT
[ENA]
¡û
Identical group No.776236 (1 seq.)
>ENV09000269
ABSN01041784
Freshwater sediment metagenome lwFormaldehyde_C1
465
393
-
Arg
CCT
[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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