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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 lwMethylamine_C1
Anticodon = GCA
HIT:
5 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.772181 (1 seq.)
>ENV09001528
ABSR01024612
Freshwater sediment metagenome lwMethylamine_C1
774
848
+
Cys
GCA
[ENA]
¡û
Identical group No.779480 (15 seq.)
>WENV180097525
MTBK01194003
[MTBK] anaerobic digester metagenome; biogas reactors fed with pig manure or primary and secondary sludge
460
387
-
Cys
GCA
[ENA]
¢þ
>WENV181188063
OEOE01018604
[OEOE] activated sludge metagenome; Activated Sludge
596
669
+
Cys
GCA
[ENA]
¢þ
>WENV181189294
OEOF01019788
[OEOF] activated sludge metagenome; Activated Sludge
568
641
+
Cys
GCA
[ENA]
¢þ
>WENV181379508
OFRD01002393
[OFRD] wastewater metagenome; Exp Tend CN 100WW
3522
3595
+
Cys
GCA
[ENA]
¢þ
>WENV181400686
OFSF01018302
[OFSF] wastewater metagenome; Exp Tend VB 100WW
928
1001
+
Cys
GCA
[ENA]
¢þ
>WENV170558924
CXWL01100330
[CXWL] groundwater metagenome; biofilm material
7759
7832
+
Cys
GCA
[ENA]
¢þ
>WENV170601278
FUWD010164998
[FUWD] metagenome; unknown
183
256
+
Cys
GCA
[ENA]
¢þ
>WENV170706044
LNAP01000968
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
31423
31496
+
Cys
GCA
[ENA]
¢þ
>WENV170961468
MLJW01000057
[MLJW] mine drainage metagenome; sample collected from the inflow into an acid mine drainage treatment plant; enriched for
107714
107787
+
Cys
GCA
[ENA]
¢þ
>C151104084
LN794158
Betaproteobacteria
Candidatus Methylopumilus turicensis MMS-10A-171 [LN794158]
1026708
1026635
-
Cys
GCA
[Ensembl]
¡û
>ENV09001222
ABSQ01052576
Freshwater sediment metagenome lwMethenol_C1
675
748
+
Cys
GCA
[ENA]
¡û
>ENV09001520
ABSR01024042
Freshwater sediment metagenome lwMethylamine_C1
435
362
-
Cys
GCA
[ENA]
¡û
>ENV09001595
ABSR01034670
Freshwater sediment metagenome lwMethylamine_C1
364
437
+
Cys
GCA
[ENA]
¡û
>C10109347
CP002056
Betaproteobacteria
Methylotenera versatilis 301 [CP002056]
794849
794922
+
Cys
GCA
[Ensembl]
¡û
>W1511433556
JUHH01000001
Betaproteobacteria
Methylotenera sp. G11 [JUHH]
973386
973313
-
Cys
GCA
[ENA]
¡û
Identical group No.780738 (49 seq.)
>W1710878090
LMQQ01000004
Betaproteobacteria
Methylophilus sp. Leaf414 [LMQQ]
484179
484252
+
Cys
GCA
[ENA]
¡û
>W1710878175
LMQS01000005
Betaproteobacteria
Methylophilus sp. Leaf416 [LMQS]
33050
33123
+
Cys
GCA
[ENA]
¡û
>W1710878406
LMQX01000015
Betaproteobacteria
Methylophilus sp. Leaf459 [LMQX]
297920
297847
-
Cys
GCA
[ENA]
¡û
>W1710893307
LNEP01000007
Betaproteobacteria
Betaproteobacteria bacterium Ga0077540 [LNEP]
65122
65195
+
Cys
GCA
[ENA]
¡û
>W131163887
ARAC01000001
Betaproteobacteria
Methylophilus sp. 42 [ARAC]
1829544
1829471
-
Cys
GCA
[ENA]
¡û
>W131164762
ARBA01000003
Betaproteobacteria
Methylotenera mobilis 13 [ARBA]
67402
67329
-
Cys
GCA
[ENA]
¡û
>W131170299
ARFK01000006
Betaproteobacteria
Methylophilus sp. 1 [ARFK]
254847
254774
-
Cys
GCA
[ENA]
¡û
>W131176233
ARJW01000014
Betaproteobacteria
Methylophilus methylotrophus DSM 46235 = ATCC 53528 [ARJW]
34503
34576
+
Cys
GCA
[ENA]
¡û
>W131186187
ARVX01000001
Betaproteobacteria
Methylotenera versatilis 79 [ARVX]
1708191
1708264
+
Cys
GCA
[ENA]
¡û
>W131186412
ARWC01000001
Betaproteobacteria
Methylotenera sp. 1P/1 [ARWC]
1047107
1047034
-
Cys
GCA
[ENA]
¡û
>W131186562
ARWF01000001
Betaproteobacteria
Methylotenera sp. 73s [ARWF]
2587661
2587734
+
Cys
GCA
[ENA]
¡û
>W1711340003
MCAW01000012
Betaproteobacteria
Methylophilales bacterium LSUCC0135 [MCAW]
3733
3660
-
Cys
GCA
[ENA]
¡û
>C013398
CP000284
Betaproteobacteria
Methylobacillus flagellatus KT [CP000284]
1943669
1943596
-
Cys
GCA
[Ensembl]
¡û
>WENV180591842
OCOV01118864
[OCOV] marine metagenome; ENVO:01000301
345
272
-
Cys
GCA
[ENA]
¢þ
>WENV181187820
OEOE01000042
[OEOE] activated sludge metagenome; Activated Sludge
9905
9832
-
Cys
GCA
[ENA]
¢þ
>WENV181189056
OEOF01000074
[OEOF] activated sludge metagenome; Activated Sludge
12275
12202
-
Cys
GCA
[ENA]
¢þ
>WENV181222650
OFDC01000048
[OFDC] hot springs metagenome; Water
150112
150185
+
Cys
GCA
[ENA]
¢þ
>WENV181222670
OFDC01000068
[OFDC] hot springs metagenome; Water
36186
36259
+
Cys
GCA
[ENA]
¢þ
>WENV181227144
OFDN01002328
[OFDN] hot springs metagenome; Water
10512
10439
-
Cys
GCA
[ENA]
¢þ
>W141220082
AZXN01000002
Betaproteobacteria
Methylophilus sp. 5 [AZXN]
275809
275736
-
Cys
GCA
[ENA]
¡û
>W141231925
BAUS01000012
Betaproteobacteria
Methylophilus sp. OH31 [BAUS]
38634
38707
+
Cys
GCA
[ENA]
¡û
>W141350157
JCKJ01000001
Betaproteobacteria
Methylophilaceae bacterium 11 [JCKJ]
1924472
1924399
-
Cys
GCA
[ENA]
¡û
>WENV170654510
JRYL01000167
[JRYL] activated sludge metagenome; activated biomass of a wastewater treatment plant treating wastewater from different
85
158
+
Cys
GCA
[ENA]
¢þ
>WENV170705933
LNAP01000675
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
42514
42587
+
Cys
GCA
[ENA]
¢þ
>WENV170709558
LNFM01000469
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
21
94
+
Cys
GCA
[ENA]
¢þ
>WENV170709855
LNFM01000809
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
65098
65171
+
Cys
GCA
[ENA]
¢þ
>WENV170712528
LNFM01014456
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
21
94
+
Cys
GCA
[ENA]
¢þ
>WENV170713514
LNFM01033523
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
337
410
+
Cys
GCA
[ENA]
¢þ
>WENV170713567
LNFM01034863
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
3983
3910
-
Cys
GCA
[ENA]
¢þ
>W09101006
AADX02000003
Betaproteobacteria
Methylobacillus flagellatus KT [AADX]
29585
29512
-
Cys
GCA
[ENA]
¡û
>W141819388
JQMG01000001
Betaproteobacteria
Methylotenera sp. L2L1 [JQMG]
67688
67615
-
Cys
GCA
[ENA]
¡û
>C09107567
CP001674
Betaproteobacteria
Methylovorus glucosotrophus SIP3-4 [CP001674]
1057746
1057819
+
Cys
GCA
[Ensembl]
¡û
>C09107791
CP001672
Betaproteobacteria
Methylotenera mobilis JLW8 [CP001672]
827348
827421
+
Cys
GCA
[Ensembl]
¡û
>W1910547730
FZOA01000002
Betaproteobacteria
Methylobacillus rhizosphaerae Ca-68 [FZOA]
51011
51084
+
Cys
GCA
[ENA]
¡û
>W1910730048
MHBU01000034
Betaproteobacteria
Methylotenera sp. RIFCSPLOWO2_02_FULL_45_14 [MHBU]
8746
8673
-
Cys
GCA
[ENA]
¡û
>W1911624012
PQVH01000015
Betaproteobacteria
Methylotenera oryzisoli La3113 [PQVH]
8479
8406
-
Cys
GCA
[ENA]
¡û
>C151089467
CP012020
Betaproteobacteria
Methylophilus sp. TWE2 [CP012020]
1877262
1877189
-
Cys
GCA
[Ensembl]
¡û
>ENV09001314
ABSR01001251
Freshwater sediment metagenome lwMethylamine_C1
133
60
-
Cys
GCA
[ENA]
¡û
>ENV09001366
ABSR01003429
Freshwater sediment metagenome lwMethylamine_C1
967
1040
+
Cys
GCA
[ENA]
¡û
>ENV09001407
ABSR01005637
Freshwater sediment metagenome lwMethylamine_C1
2898
2971
+
Cys
GCA
[ENA]
¡û
>C11114202
CP002252
Betaproteobacteria
Methylovorus sp. MP688 [CP002252]
1043693
1043766
+
Cys
GCA
[Ensembl]
¡û
>W1511431988
JUGE01000001
Betaproteobacteria
Methylotenera sp. N17 [JUGE]
1579850
1579777
-
Cys
GCA
[ENA]
¡û
>W1511432036
JUGF01000002
Betaproteobacteria
Methylotenera versatilis 7 [JUGF]
16307
16234
-
Cys
GCA
[ENA]
¡û
>W1511433396
JUHE01000001
Betaproteobacteria
Methylophilus sp. Q8 [JUHE]
2285815
2285888
+
Cys
GCA
[ENA]
¡û
>W1610740436
LMQQ01000004
Betaproteobacteria
Methylophilus sp. Leaf414 [LMQQ]
484179
484252
+
Cys
GCA
[ENA]
¡û
>W1610740521
LMQS01000005
Betaproteobacteria
Methylophilus sp. Leaf416 [LMQS]
33050
33123
+
Cys
GCA
[ENA]
¡û
>W1610740752
LMQX01000015
Betaproteobacteria
Methylophilus sp. Leaf459 [LMQX]
297920
297847
-
Cys
GCA
[ENA]
¡û
>W1610753573
LNEP01000007
Betaproteobacteria
Betaproteobacteria bacterium Ga0077540 [LNEP]
65122
65195
+
Cys
GCA
[ENA]
¡û
>W1710520777
FNFX01000001
Betaproteobacteria
Methylophilus rhizosphaerae [FNFX]
327213
327140
-
Cys
GCA
[ENA]
¡û
Identical group No.791147 (9 seq.)
>WENV180354126
OBLQ011396487
[OBLQ] soil metagenome; soil
98
171
+
Cys
GCA
[ENA]
¢þ
>WENV181186090
OEMN01000165
[OEMN] metagenome; 1998
1389
1462
+
Cys
GCA
[ENA]
¢þ
>WENV183683471
ORMF010580381
[ORMF] groundwater metagenome; groundwater
2
75
+
Cys
GCA
[ENA]
¢þ
>WENV183689063
ORMF011385823
[ORMF] groundwater metagenome; groundwater
322
395
+
Cys
GCA
[ENA]
¢þ
>W1910697512
MEKU01000048
Acidobacteriota
Acidobacteria bacterium RIFCSPLOWO2_02_FULL_67_21 [MEKU]
38788
38715
-
Cys
GCA
[ENA]
¡û
>W1910697585
MEKW01000015
Acidobacteriota
Acidobacteria bacterium RIFCSPLOWO2_02_FULL_68_18 [MEKW]
6656
6583
-
Cys
GCA
[ENA]
¡û
>W1910697836
MELD01000068
Acidobacteriota
Acidobacteria bacterium RIFCSPLOWO2_12_FULL_67_14 [MELD]
4071
3998
-
Cys
GCA
[ENA]
¡û
>W1910697915
MELF01000029
Acidobacteriota
Acidobacteria bacterium RIFCSPLOWO2_12_FULL_68_19 [MELF]
97530
97603
+
Cys
GCA
[ENA]
¡û
>ENV09001465
ABSR01012193
Freshwater sediment metagenome lwMethylamine_C1
412
339
-
Cys
GCA
[ENA]
¡û
Identical group No.834010 (1 seq.)
>ENV09001486
ABSR01016450
Freshwater sediment metagenome lwMethylamine_C1
538
465
-
Cys
GCA
[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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