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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
1
, Akira Muto
6
, Yo Kikuchi
1
, Hachiro Inokuchi
1
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.523752 (106 seq.)
>W1710860127
LMCQ01000008
Betaproteobacteria
Variovorax sp. Root318D1 [LMCQ]
108573
108648
+
Ala
CGC
[ENA]
¡û
>W1710861745
LMDW01000001
Betaproteobacteria
Variovorax sp. Root411 [LMDW]
722351
722276
-
Ala
CGC
[ENA]
¡û
>W1710873719
LMNA01000001
Betaproteobacteria
Pseudorhodoferax sp. Leaf274 [LMNA]
555835
555760
-
Ala
CGC
[ENA]
¡û
>W1710882316
LMTS01000069
Betaproteobacteria
Variovorax sp. WDL1 [LMTS]
39576
39651
+
Ala
CGC
[ENA]
¡û
>W1711259822
LYVO01000037
Betaproteobacteria
Variovorax sp. KK3 [LYVO]
29908
29833
-
Ala
CGC
[ENA]
¡û
>W1711386510
MEFM01000027
Betaproteobacteria
Variovorax sp. SCN 67-85 [MEFM]
28332
28407
+
Ala
CGC
[ENA]
¡û
>W1711387466
MEGR01000005
Betaproteobacteria
Variovorax sp. SCN 67-20 [MEGR]
52383
52308
-
Ala
CGC
[ENA]
¡û
>W1711506644
MKWO01000051
Betaproteobacteria
Variovorax sp. 67-131 [MKWO]
102232
102157
-
Ala
CGC
[ENA]
¡û
>W131174645
ARIP01000071
Betaproteobacteria
Variovorax paradoxus 4MFCol3.1 [ARIP]
424126
424201
+
Ala
CGC
[ENA]
¡û
>WENV180016740
FSVW01000808
[FSVW] metagenome; soil
7220
7145
-
Ala
CGC
[ENA]
¡û
>WENV180028789
FTJH01000373
[FTJH] metagenome; soil
879
804
-
Ala
CGC
[ENA]
¡û
>WENV180370975
OBOI01000044
[OBOI] sediment metagenome; sediment
47868
47943
+
Ala
CGC
[ENA]
¡û
>WENV181364799
OFPD01000364
[OFPD] sediment metagenome; Lake sediment
1867
1792
-
Ala
CGC
[ENA]
¡û
>WENV181364974
OFPG01003011
[OFPG] sediment metagenome; Lake sediment
795
720
-
Ala
CGC
[ENA]
¡û
>WENV170012157
APMI01127834
[APMI] wastewater metagenome; sequencing batch reactors (SBR) enriched microbial communities from a Danish wastwater
76
1
-
Ala
CGC
[ENA]
¡û
>W141425989
JEMG01000001
Betaproteobacteria
Hylemonella gracilis str. Niagara R [JEMG]
3096705
3096780
+
Ala
CGC
[ENA]
¡û
>WENV170556928
CXWL01016409
[CXWL] groundwater metagenome; biofilm material
103
28
-
Ala
CGC
[ENA]
¡û
>WENV170559421
CXWL01122897
[CXWL] groundwater metagenome; biofilm material
1406
1331
-
Ala
CGC
[ENA]
¡û
>WENV170559516
CXWL01127031
[CXWL] groundwater metagenome; biofilm material
1053
1128
+
Ala
CGC
[ENA]
¡û
>WENV170634589
FZPR01000014
[FZPR] metagenome; sediment
20501
20426
-
Ala
CGC
[ENA]
¡û
>WENV170639283
JFJP01001751
[JFJP] microbial mat metagenome; purple microbial (photo- and chemosynthetic) mats found in low-oxygen high-sulfur sink
21827
21902
+
Ala
CGC
[ENA]
¡û
>WENV170639558
JFJP01004533
[JFJP] microbial mat metagenome; purple microbial (photo- and chemosynthetic) mats found in low-oxygen high-sulfur sink
3109
3034
-
Ala
CGC
[ENA]
¡û
>WENV170707567
LNAP01025632
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
835
760
-
Ala
CGC
[ENA]
¡û
>WENV170708448
LNAP01082721
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
835
760
-
Ala
CGC
[ENA]
¡û
>WENV170708736
LNAQ01000384
[LNAQ] soil metagenome; soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
1841
1766
-
Ala
CGC
[ENA]
¡û
>WENV171003368
NNBT01007116
[NNBT] plant metagenome; symbiotic tissue sample KVJ10
1143
1218
+
Ala
CGC
[ENA]
¡û
>WENV171003624
NNBU01000968
[NNBU] plant metagenome; symbiotic tissue sample KVJ2
5298
5373
+
Ala
CGC
[ENA]
¡û
>WENV171003788
NNBV01000777
[NNBV] plant metagenome; symbiotic tissue sample KVS11
138067
137992
-
Ala
CGC
[ENA]
¡û
>W141558071
JHVQ01000004
Betaproteobacteria
Variovorax sp. URHB0020 [JHVQ]
230794
230719
-
Ala
CGC
[ENA]
¡û
>W09119918
ACEE01000006
Betaproteobacteria
Variovorax paradoxus S110 [ACEE]
154410
154335
-
Ala
CGC
[ENA]
¡û
>C09111127
CP001635
Betaproteobacteria
Variovorax paradoxus [CP001635]
1651958
1651883
-
Ala
CGC
[Ensembl]
¡û
>C141002578
CP003911
Betaproteobacteria
Variovorax paradoxus B4 [CP003911, CP003912]
1759898
1759823
-
Ala
CGC
[Ensembl]
¡û
>W1911496698
OCMW01000001
Betaproteobacteria
Variovorax sp. YR752 [OCMW]
5441457
5441532
+
Ala
CGC
[ENA]
¡û
>W1911647324
QAJK01000013
Betaproteobacteria
Variovorax sp. KBW07 [QAJK]
29018
28943
-
Ala
CGC
[ENA]
¡û
>W1810046177
NNBQ01000002
Betaproteobacteria
Variovorax sp. B4 [NNBQ]
226037
225962
-
Ala
CGC
[ENA]
¡û
>W1810046274
NNBR01000002
Betaproteobacteria
Variovorax sp. B2 [NNBR]
226037
225962
-
Ala
CGC
[ENA]
¡û
>W1810072235
PEFF01000001
Betaproteobacteria
Variovorax sp. 54 [PEFF]
5116163
5116088
-
Ala
CGC
[ENA]
¡û
>W1810192728
PKMT01000005
Betaproteobacteria
Variovorax sp. RO1 [PKMT]
243835
243910
+
Ala
CGC
[ENA]
¡û
>SRA1003750
SRR002327.163555
The Glacier Ice Metagenome Of The Northern Schneeferner (SRP000240)
170
95
-
Ala
CGC
[SRA]
>W1810392033
PXZZ01000007
Betaproteobacteria
Variovorax sp. WS11 [PXZZ]
95515
95440
-
Ala
CGC
[ENA]
¡û
>W1810486673
QAYA01000008
Betaproteobacteria
Variovorax sp. GV040 [QAYA]
36879
36954
+
Ala
CGC
[ENA]
¡û
>W1810577506
QEOH01000002
Betaproteobacteria
Variovorax sp. GV014 [QEOH]
332513
332588
+
Ala
CGC
[ENA]
¡û
>W1810672522
QJTM01000002
Betaproteobacteria
Variovorax sp. GV035 [QJTM]
36879
36954
+
Ala
CGC
[ENA]
¡û
>W1810676110
QKLT01000008
Betaproteobacteria
Variovorax sp. GV042 [QKLT]
36879
36954
+
Ala
CGC
[ENA]
¡û
>W1810682459
QKUE01000002
Betaproteobacteria
Variovorax sp. GV004 [QKUE]
36879
36954
+
Ala
CGC
[ENA]
¡û
>W2010469805
JAAGOW010000001
Betaproteobacteria
Variovorax sp. WS11 [JAAGOW]
1170680
1170755
+
Ala
CGC
[ENA]
¡û
>W2010609287
JABMJH010000002
Betaproteobacteria
Variovorax sp. SG533 [JABMJH]
1407097
1407172
+
Ala
CGC
[ENA]
¡û
>W2010727880
JACIGE010000001
Betaproteobacteria
Rhodocyclus tenuis 2761 [JACIGE]
65138
65063
-
Ala
CGC
[ENA]
¡û
>W2010782050
LMUW01000200
Betaproteobacteria
Xenophilus sp. L33 [LMUW]
23155
23230
+
Ala
CGC
[ENA]
¡û
>W2011157602
OCMW01000001
Betaproteobacteria
Variovorax sp. YR752 [OCMW]
5441457
5441532
+
Ala
CGC
[ENA]
¡û
>W2011235308
QAJK01000013
Betaproteobacteria
Variovorax sp. KBW07 [QAJK]
29018
28943
-
Ala
CGC
[ENA]
¡û
>W2011407887
RCZI01000004
Betaproteobacteria
Variovorax guangxiensis S06.C [RCZI]
106723
106798
+
Ala
CGC
[ENA]
¡û
>W2011407936
RCZJ01000006
Betaproteobacteria
Variovorax ginsengisoli S09.D [RCZJ]
79407
79332
-
Ala
CGC
[ENA]
¡û
>W2011494472
RWKH01000030
Betaproteobacteria
Variovorax sp. DXTD-1 [RWKH]
59112
59187
+
Ala
CGC
[ENA]
¡û
>W2011577717
SGWS01000006
Betaproteobacteria
Variovorax sp. BK460 [SGWS]
251349
251274
-
Ala
CGC
[ENA]
¡û
>W2011624469
SLYJ01000003
Betaproteobacteria
Variovorax sp. GV051 [SLYJ]
36879
36954
+
Ala
CGC
[ENA]
¡û
>W2011625441
SLYZ01000002
Betaproteobacteria
Variovorax sp. GV008 [SLYZ]
332513
332588
+
Ala
CGC
[ENA]
¡û
>W2011692229
SSSP01000011
Betaproteobacteria
Rhodocyclus tenuis Pfennig 2761 [SSSP]
149692
149767
+
Ala
CGC
[ENA]
¡û
>W2110079445
CAIGKF010000007
Betaproteobacteria
Variovorax paradoxus [CAIGKF]
25083
25158
+
Ala
CGC
[ENA]
¡û
>W2110159662
JAATOM010000003
Betaproteobacteria
Variovorax sp. dw_308 [JAATOM]
526352
526427
+
Ala
CGC
[ENA]
¡û
>W2110161248
JAAVVD010000008
Betaproteobacteria
Variovorax sp. dw_954 [JAAVVD]
77491
77416
-
Ala
CGC
[ENA]
¡û
>W2110408644
JAEFCB010000015
Betaproteobacteria
Variovorax sp. IB41 [JAEFCB]
72091
72166
+
Ala
CGC
[ENA]
¡û
>W2110457154
JAEVYQ010000084
Betaproteobacteria
Variovorax paradoxus BFB1_13 [JAEVYQ]
10432
10507
+
Ala
CGC
[ENA]
¡û
>W2110541692
JAGGNU010000020
Betaproteobacteria
Variovorax paradoxus ISL-3 [JAGGNU]
104443
104518
+
Ala
CGC
[ENA]
¡û
>W2110541770
JAGGNW010000009
Betaproteobacteria
Variovorax paradoxus ISL-81 [JAGGNW]
331965
331890
-
Ala
CGC
[ENA]
¡û
>C201162722
CP045644
Betaproteobacteria
Variovorax paradoxus 5C-2 [CP045644]
6795852
6795927
+
Ala
CGC
-
¡û
>C201306929
LR594659
Betaproteobacteria
Variovorax sp. PBL-H6 [LR594659]
4646359
4646434
+
Ala
CGC
-
¡û
>C201307063
LR594671
Betaproteobacteria
Variovorax sp. PBL-E5 [LR594671]
3968572
3968647
+
Ala
CGC
-
¡û
>C201307105
LR594675
Betaproteobacteria
Variovorax sp. PBS-H4 [LR594675]
4973838
4973913
+
Ala
CGC
-
¡û
>C211132297
CP060295
Betaproteobacteria
Variovorax sp. PAMC26660 [CP060295]
4422332
4422257
-
Ala
CGC
-
¡û
>C211132345
CP060296
Betaproteobacteria
Variovorax sp. PAMC28562 [CP060296]
2504177
2504102
-
Ala
CGC
-
¡û
>C211157212
CP062121
Betaproteobacteria
Variovorax sp. 38R [CP062121]
1633153
1633078
-
Ala
CGC
-
¡û
>C211172934
CP063166
Betaproteobacteria
Variovorax paradoxus VAI-C [CP063166]
2015581
2015506
-
Ala
CGC
-
¡û
>W2110748889
MOWM01000048
Betaproteobacteria
Variovorax sp. E3 [MOWM]
9661
9736
+
Ala
CGC
[ENA]
¡û
>W2110753975
NRRZ01000003
Betaproteobacteria
Rhodocyclus tenuis IM 230 [NRRZ]
521608
521683
+
Ala
CGC
[ENA]
¡û
>C231415918
CP099605
Betaproteobacteria
Comamonadaceae bacterium OTU4NAUVB1 [CP099605]
1100735
1100660
-
Ala
CGC
-
¡û
>C231461186
CP102931
Betaproteobacteria
Variovorax paradoxus JBCE486 [CP102931]
4895922
4895997
+
Ala
CGC
-
¡û
>C241111957
CP046622
Betaproteobacteria
Variovorax paradoxus CSUSB [CP046622]
1684782
1684707
-
Ala
CGC
-
¡û
>C241251449
CP123990
Betaproteobacteria
Variovorax paradoxus MGMM5 [CP123990]
1021656
1021581
-
Ala
CGC
-
¡û
>C241342644
CP138513
Betaproteobacteria
Variovorax paradoxus SPNA7 [CP138513]
1655129
1655054
-
Ala
CGC
-
¡û
>C241342688
CP138515
Betaproteobacteria
Variovorax paradoxus 2u118 [CP138515]
1654648
1654573
-
Ala
CGC
-
¡û
>C241380109
LR594662
Betaproteobacteria
Variovorax sp. RA8 [LR594662]
4894683
4894758
+
Ala
CGC
-
¡û
>C241380155
LR594666
Betaproteobacteria
Variovorax sp. SRS16 [LR594666]
4056243
4056318
+
Ala
CGC
-
¡û
>C241380186
LR594689
Betaproteobacteria
Variovorax sp. WDL1 [LR594689]
1588872
1588947
+
Ala
CGC
-
¡û
>C11123616
CP002417
Betaproteobacteria
Variovorax paradoxus EPS [CP002417]
1852900
1852825
-
Ala
CGC
[Ensembl]
¡û
>W11137163
AEGR01000074
Betaproteobacteria
Hylemonella gracilis ATCC 19624 [AEGR]
215
140
-
Ala
CGC
[ENA]
¡û
>W1511508950
JXQQ01000119
Betaproteobacteria
Variovorax paradoxus MEDvA23 [JXQQ]
142861
142936
+
Ala
CGC
[ENA]
¡û
>W1511555005
JZWI01000019
Betaproteobacteria
Variovorax paradoxus TBEA6 [JZWI]
13881
13806
-
Ala
CGC
[ENA]
¡û
>W1610047748
BBDP01000210
Betaproteobacteria
Variovorax sp. RA8 [BBDP]
3933
4008
+
Ala
CGC
[ENA]
¡û
>W1610072183
BCUT01000001
Betaproteobacteria
Variovorax paradoxus NBRC 15149 [BCUT]
1101764
1101839
+
Ala
CGC
[ENA]
¡û
>W1610722473
LMCQ01000008
Betaproteobacteria
Variovorax sp. Root318D1 [LMCQ]
108573
108648
+
Ala
CGC
[ENA]
¡û
>W1610724091
LMDW01000001
Betaproteobacteria
Variovorax sp. Root411 [LMDW]
722351
722276
-
Ala
CGC
[ENA]
¡û
>W1610736065
LMNA01000001
Betaproteobacteria
Pseudorhodoferax sp. Leaf274 [LMNA]
555835
555760
-
Ala
CGC
[ENA]
¡û
>W1610744242
LMTS01000069
Betaproteobacteria
Variovorax sp. WDL1 [LMTS]
39576
39651
+
Ala
CGC
[ENA]
¡û
>W1710044258
BBDP01000210
Betaproteobacteria
Variovorax sp. RA8 [BBDP]
3933
4008
+
Ala
CGC
[ENA]
¡û
>W1710069385
BCUT01000001
Betaproteobacteria
Variovorax paradoxus NBRC 15149 [BCUT]
1101764
1101839
+
Ala
CGC
[ENA]
¡û
>W1710516945
FNCY01000007
Betaproteobacteria
Propionivibrio dicarboxylicus [FNCY]
25631
25706
+
Ala
CGC
[ENA]
¡û
>W1710517953
FNDR01000006
Betaproteobacteria
Variovorax sp. OV700 [FNDR]
149723
149798
+
Ala
CGC
[ENA]
¡û
>W1710530011
FNOL01000001
Betaproteobacteria
Variovorax sp. YR634 [FNOL]
739953
739878
-
Ala
CGC
[ENA]
¡û
>W1710531345
FNPM01000001
Betaproteobacteria
Variovorax sp. YR266 [FNPM]
113225
113300
+
Ala
CGC
[ENA]
¡û
>W1710542692
FNZJ01000001
Betaproteobacteria
Variovorax sp. OK202 [FNZJ]
1100688
1100613
-
Ala
CGC
[ENA]
¡û
>W1710554290
FOII01000002
Betaproteobacteria
Variovorax sp. OV084 [FOII]
107264
107339
+
Ala
CGC
[ENA]
¡û
>W1710558131
FOLP01000001
Betaproteobacteria
Variovorax sp. OK212 [FOLP]
1100688
1100613
-
Ala
CGC
[ENA]
¡û
>W1710571877
FOWG01000009
Betaproteobacteria
Variovorax sp. PDC80 [FOWG]
300967
300892
-
Ala
CGC
[ENA]
¡û
>W1710572116
FOWL01000002
Betaproteobacteria
Variovorax sp. OK605 [FOWL]
482779
482704
-
Ala
CGC
[ENA]
¡û
>W1710573277
FOXJ01000001
Betaproteobacteria
Variovorax sp. 770b2 [FOXJ]
3168727
3168802
+
Ala
CGC
[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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