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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
|
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.103138 (85 seq.)
>W1711259824
LYVO01000039
Betaproteobacteria
Variovorax sp. KK3 [LYVO]
463
378
-
Tyr
GTA
[ENA]
¡û
>W1711765095
MUXB01000019
Betaproteobacteria
Herbaspirillum sp. VT-16-41 [MUXB]
53246
53161
-
Tyr
GTA
[ENA]
¡û
>W1712110284
NJGU01000016
Betaproteobacteria
Herbaspirillum robiniae HZ10 [NJGU]
96298
96383
+
Tyr
GTA
[ENA]
¡û
>C171083845
CP018787
Betaproteobacteria
Oxalobacter formigenes HC-1 [CP018787]
82074
81989
-
Tyr
GTA
-
¡û
>C171094257
CP019430
Betaproteobacteria
Oxalobacter formigenes OXCC13 [CP019430]
19298
19213
-
Tyr
GTA
-
¡û
>C171103256
CP020046
Betaproteobacteria
Thiomonas intermedia ATCC 15466 [CP020046]
1661422
1661337
-
Tyr
GTA
-
¡û
>WENV180099478
NMRC01007693
[NMRC] plant metagenome; fluid collected inside the plant's pitcher
295
210
-
Tyr
GTA
[ENA]
¡û
>WENV180099689
NMRC01022766
[NMRC] plant metagenome; fluid collected inside the plant's pitcher
339
424
+
Tyr
GTA
[ENA]
¡û
>WENV181227909
OFDN01075422
[OFDN] hot springs metagenome; Water
594
679
+
Tyr
GTA
[ENA]
¡û
>WENV181365004
OFPH01000219
[OFPH] sediment metagenome; Lake sediment
455
370
-
Tyr
GTA
[ENA]
¡û
>WENV181365062
OFPI01000181
[OFPI] sediment metagenome; Lake sediment
453
368
-
Tyr
GTA
[ENA]
¡û
>WENV181365099
OFPJ01000102
[OFPJ] sediment metagenome; Lake sediment
12271
12356
+
Tyr
GTA
[ENA]
¡û
>WENV181365148
OFPK01000035
[OFPK] sediment metagenome; Lake sediment
41211
41296
+
Tyr
GTA
[ENA]
¡û
>WENV181365200
OFPL01000076
[OFPL] sediment metagenome; Lake sediment
12396
12481
+
Tyr
GTA
[ENA]
¡û
>WENV181365226
OFPM01000093
[OFPM] sediment metagenome; Lake sediment
93
178
+
Tyr
GTA
[ENA]
¡û
>WENV181365416
OFPQ01001222
[OFPQ] sediment metagenome; Lake sediment
443
358
-
Tyr
GTA
[ENA]
¡û
>WENV181365477
OFPR01000890
[OFPR] sediment metagenome; Lake sediment
1190
1275
+
Tyr
GTA
[ENA]
¡û
>WENV181416902
OGCL01177514
[OGCL] hot springs metagenome; Hot spring water
484
399
-
Tyr
GTA
[ENA]
¡û
>W141223504
BADI01000794
Betaproteobacteria
Herbaspirillum sp. B65 [BADI]
2024
1939
-
Tyr
GTA
[ENA]
¡û
>WENV183735592
PJUB01000110
[PJUB] soil metagenome; Soil enriched on filter paper: alkali lignin treatment
62118
62203
+
Tyr
GTA
[ENA]
¡û
>WENV183740870
PJUF01014302
[PJUF] feces metagenome; Chicken feces (3) enriched on wood chips
932
847
-
Tyr
GTA
[ENA]
¡û
>WENV183741289
PJUF01075874
[PJUF] feces metagenome; Chicken feces (3) enriched on wood chips
314
399
+
Tyr
GTA
[ENA]
¡û
>WENV183742028
PJUH01000081
[PJUH] feces metagenome; Chicken feces (2) enriched on wood chips: alkali lignin treatment
542
457
-
Tyr
GTA
[ENA]
¡û
>ENV08001497
ABNE01018111
fish metagenome; viral fraction from slime layer of hybrid striped bass from Kent SeaTech (Salton Sea, CA; fish were sick at time of sampling
101
16
-
Tyr
GTA
[ENA]
¡û
>WENV170069446
CDZP01042611
[CDZP] gut metagenome; human stools
681
596
-
Tyr
GTA
[ENA]
¡û
>WENV170110588
CECF01035025
[CECF] gut metagenome; human stools
256
171
-
Tyr
GTA
[ENA]
¡û
>WENV170193525
CEPH01102984
[CEPH] marine metagenome genome assembly TARA_048_SRF_0.1-0.22 ,contig; saline water (ENVO:00002010), including plankton (ENVO:xxxxxxxx)
419
504
+
Tyr
GTA
[ENA]
¡û
>WENV170557361
CXWL01025156
[CXWL] groundwater metagenome; biofilm material
532
447
-
Tyr
GTA
[ENA]
¡û
>WENV170558940
CXWL01101176
[CXWL] groundwater metagenome; biofilm material
5156
5241
+
Tyr
GTA
[ENA]
¡û
>WENV170961886
MLJW01004591
[MLJW] mine drainage metagenome; sample collected from the inflow into an acid mine drainage treatment plant; enriched for
1476
1561
+
Tyr
GTA
[ENA]
¡û
>C191029325
CP024996
Betaproteobacteria
Herbaspirillum rubrisubalbicans DSM 11543 [CP024996]
128689
128774
+
Tyr
GTA
-
¡û
>W141558098
JHVQ01000014
Betaproteobacteria
Variovorax sp. URHB0020 [JHVQ]
194636
194721
+
Tyr
GTA
[ENA]
¡û
>W1910700240
MESI01000058
Betaproteobacteria
Burkholderiales bacterium RIFCSPLOWO2_12_FULL_61_40 [MESI]
22008
22093
+
Tyr
GTA
[ENA]
¡û
>W2010585644
JABAIM010000001
Betaproteobacteria
Leeia sp. IMCC25680 [JABAIM]
1294904
1294819
-
Tyr
GTA
[ENA]
¡û
>W2010609270
JABMJG010000021
Betaproteobacteria
Variovorax sp. SG517 [JABMJG]
501
416
-
Tyr
GTA
[ENA]
¡û
>W2010609316
JABMJH010000005
Betaproteobacteria
Variovorax sp. SG533 [JABMJH]
465676
465761
+
Tyr
GTA
[ENA]
¡û
>W2010652046
JABXYJ010000004
Betaproteobacteria
Undibacterium oligocarboniphilum EM 1 [JABXYJ]
436529
436614
+
Tyr
GTA
[ENA]
¡û
>W2010717510
JACHYC010000006
Betaproteobacteria
Variovorax sp. Sphag1AA [JACHYC]
666180
666265
+
Tyr
GTA
[ENA]
¡û
>W2010717653
JACHYF010000016
Betaproteobacteria
Herbaspirillum sp. Sphag1AN [JACHYF]
690
605
-
Tyr
GTA
[ENA]
¡û
>W2010833666
MESI01000058
Betaproteobacteria
Burkholderiales bacterium RIFCSPLOWO2_12_FULL_61_40 [MESI]
22008
22093
+
Tyr
GTA
[ENA]
¡û
>W2011182783
PDBX01000001
Betaproteobacteria
Collimonas sp. PA-H2 [PDBX]
2804459
2804544
+
Tyr
GTA
[ENA]
¡û
>W2011283290
QPIB01000012
Betaproteobacteria
Xenophilus sp. E41 [QPIB]
571
486
-
Tyr
GTA
[ENA]
¡û
>W2011407938
RCZJ01000007
Betaproteobacteria
Variovorax ginsengisoli S09.D [RCZJ]
1020
935
-
Tyr
GTA
[ENA]
¡û
>W2011494464
RWKH01000025
Betaproteobacteria
Variovorax sp. DXTD-1 [RWKH]
510
425
-
Tyr
GTA
[ENA]
¡û
>W2011495917
RXFT01000023
Betaproteobacteria
Variovorax guangxiensis DSM 27352 [RXFT]
80492
80577
+
Tyr
GTA
[ENA]
¡û
>W2011496204
RXHT01000005
Betaproteobacteria
Variovorax sp. 369 [RXHT]
406
321
-
Tyr
GTA
[ENA]
¡û
>W2011540025
SCOE01000066
Betaproteobacteria
Comamonadaceae bacterium ALPHA2B [SCOE]
14699
14784
+
Tyr
GTA
[ENA]
¡û
>W2011620211
SLVO01000002
Betaproteobacteria
Variovorax sp. BK151 [SLVO]
566202
566287
+
Tyr
GTA
[ENA]
¡û
>W2011624492
SLYJ01000019
Betaproteobacteria
Variovorax sp. GV051 [SLYJ]
115732
115817
+
Tyr
GTA
[ENA]
¡û
>W2011626070
SLZJ01000017
Betaproteobacteria
Variovorax sp. BK370 [SLZJ]
168006
168091
+
Tyr
GTA
[ENA]
¡û
>W2011666082
SOSE01000005
Betaproteobacteria
Herbaspirillum seropedicae AG215 [SOSE]
72811
72726
-
Tyr
GTA
[ENA]
¡û
>W2011971334
VCCD02000002
Betaproteobacteria
Variovorax sp. KBS0712 [VCCD]
1442684
1442599
-
Tyr
GTA
[ENA]
¡û
>W2011997680
VEDO01000010
Betaproteobacteria
Variovorax boronicumulans DE0202 [VEDO]
232909
232994
+
Tyr
GTA
[ENA]
¡û
>W2012047539
VIVV01000004
Betaproteobacteria
Collimonas arenae 515 [VIVV]
617
532
-
Tyr
GTA
[ENA]
¡û
>W2110049164
BMYK01000040
Betaproteobacteria
Pseudorhodoferax aquiterrae KCTC 23314 [BMYK]
39035
39120
+
Tyr
GTA
[ENA]
¡û
>W2110241799
JACOFX010000005
Betaproteobacteria
Undibacterium sp. NL8W [JACOFX]
327528
327613
+
Tyr
GTA
[ENA]
¡û
>W2110541768
JAGGNW010000005
Betaproteobacteria
Variovorax paradoxus ISL-81 [JAGGNW]
730
645
-
Tyr
GTA
[ENA]
¡û
>W2110593286
JAHCSH010000003
Betaproteobacteria
Curvibacter sp. CHRR-16 [JAHCSH]
611546
611631
+
Tyr
GTA
[ENA]
¡û
>C201107519
CP042242
Betaproteobacteria
Oxalobacter formigenes SSYG-15 [CP042242]
204416
204501
+
Tyr
GTA
-
¡û
>C201306935
LR594659
Betaproteobacteria
Variovorax sp. PBL-H6 [LR594659]
5346509
5346424
-
Tyr
GTA
-
¡û
>C201307111
LR594675
Betaproteobacteria
Variovorax sp. PBS-H4 [LR594675]
5786415
5786330
-
Tyr
GTA
-
¡û
>W10105797
ACXV01000015
Betaproteobacteria
Thiomonas intermedia K12 [ACXV]
77465
77550
+
Tyr
GTA
[ENA]
¡û
>C211118860
CP059068
Betaproteobacteria
Rhodoferax sp. AJA081-3 [CP059068]
2442661
2442576
-
Tyr
GTA
-
¡û
>C211157167
CP062121
Betaproteobacteria
Variovorax sp. 38R [CP062121]
419008
419093
+
Tyr
GTA
-
¡û
>C231399415
CP098245
Betaproteobacteria
Oxalobacter formigenes HOxSLD-1 [CP098245]
270250
270165
-
Tyr
GTA
-
¡û
>C231480280
CP103872
Betaproteobacteria
Herbaspirillum huttiense ZXN111 [CP103872]
147614
147699
+
Tyr
GTA
-
¡û
>C241251424
CP123990
Betaproteobacteria
Variovorax paradoxus MGMM5 [CP123990]
4453652
4453737
+
Tyr
GTA
-
¡û
>C241380161
LR594666
Betaproteobacteria
Variovorax sp. SRS16 [LR594666]
5139930
5139845
-
Tyr
GTA
-
¡û
>W11108117
ACXV01000015
Betaproteobacteria
Thiomonas intermedia K12 [ACXV]
77465
77550
+
Tyr
GTA
[ENA]
¡û
>C161053717
CP013235
Betaproteobacteria
Collimonas arenae Ter282 [CP013235]
303382
303467
+
Tyr
GTA
[Ensembl]
¡û
>W121061977
AJHH01000675
Betaproteobacteria
Herbaspirillum lusitanum P6-12 [AJHH]
14507
14422
-
Tyr
GTA
[ENA]
¡û
>W1610070450
BCTG01000052
Betaproteobacteria
Herbaspirillum chlorophenolicum NBRC 102525 [BCTG]
432
347
-
Tyr
GTA
[ENA]
¡û
>W1610074350
BCWP01000009
Betaproteobacteria
Curvibacter delicatus NBRC 14919 [BCWP]
416
331
-
Tyr
GTA
[ENA]
¡û
>W1710067823
BCTG01000052
Betaproteobacteria
Herbaspirillum chlorophenolicum NBRC 102525 [BCTG]
432
347
-
Tyr
GTA
[ENA]
¡û
>W1710071468
BCWP01000009
Betaproteobacteria
Curvibacter delicatus NBRC 14919 [BCWP]
416
331
-
Tyr
GTA
[ENA]
¡û
>W1710517960
FNDR01000010
Betaproteobacteria
Variovorax sp. OV700 [FNDR]
241173
241258
+
Tyr
GTA
[ENA]
¡û
>W1710530385
FNOR01000035
Betaproteobacteria
Collimonas sp. OK242 [FNOR]
763
678
-
Tyr
GTA
[ENA]
¡û
>W1710539546
FNVM01000004
Betaproteobacteria
Variovorax sp. NFACC29 [FNVM]
575608
575693
+
Tyr
GTA
[ENA]
¡û
>W1710547401
FOCW01000014
Betaproteobacteria
Brachymonas denitrificans DSM 15123 [FOCW]
23773
23858
+
Tyr
GTA
[ENA]
¡û
>W1710556471
FOKF01000070
Betaproteobacteria
Collimonas sp. OK607 [FOKF]
698
613
-
Tyr
GTA
[ENA]
¡û
>W1710557130
FOKS01000003
Betaproteobacteria
Variovorax sp. NFACC26 [FOKS]
742
657
-
Tyr
GTA
[ENA]
¡û
>W1710557526
FOLC01000004
Betaproteobacteria
Collimonas sp. OK412 [FOLC]
15568
15653
+
Tyr
GTA
[ENA]
¡û
>W1710558153
FOLP01000004
Betaproteobacteria
Variovorax sp. OK212 [FOLP]
632959
633044
+
Tyr
GTA
[ENA]
¡û
>W1710572122
FOWL01000004
Betaproteobacteria
Variovorax sp. OK605 [FOWL]
514
429
-
Tyr
GTA
[ENA]
¡û
>W1710583685
FQUZ01000030
Betaproteobacteria
Lampropedia hyalina DSM 16112 [FQUZ]
1600
1515
-
Tyr
GTA
[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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