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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.
Top
|
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.454378 (99 seq.)
>W1710808937
LKDZ01000028
Betaproteobacteria
Variovorax boronicumulans [LKDZ]
66814
66741
-
Cys
GCA
[ENA]
¡û
>W1710861014
LMDI01000015
Betaproteobacteria
Rhizobacter sp. Root1221 [LMDI]
81186
81259
+
Cys
GCA
[ENA]
¡û
>W1710862478
LMEK01000012
Betaproteobacteria
Variovorax sp. Root434 [LMEK]
418324
418397
+
Cys
GCA
[ENA]
¡û
>W1710863090
LMEV01000017
Betaproteobacteria
Variovorax sp. Root473 [LMEV]
1759326
1759253
-
Cys
GCA
[ENA]
¡û
>W1710873409
LMMT01000015
Betaproteobacteria
Pseudorhodoferax sp. Leaf265 [LMMT]
52983
52910
-
Cys
GCA
[ENA]
¡û
>W1711123807
LUJJ01000011
Betaproteobacteria
Variovorax boronicumulans [LUJJ]
86775
86848
+
Cys
GCA
[ENA]
¡û
>W1711143377
LVHG01000083
Betaproteobacteria
Variovorax paradoxus [LVHG]
33970
33897
-
Cys
GCA
[ENA]
¡û
>W131174614
ARIP01000034
Betaproteobacteria
Variovorax paradoxus 4MFCol3.1 [ARIP]
13493
13420
-
Cys
GCA
[ENA]
¡û
>W1711394875
MERT01000028
Betaproteobacteria
Burkholderiales bacterium GWF1_66_17 [MERT]
115190
115117
-
Cys
GCA
[ENA]
¡û
>W1711506625
MKWO01000021
Betaproteobacteria
Variovorax sp. 67-131 [MKWO]
265671
265744
+
Cys
GCA
[ENA]
¡û
>W1711751718
MUNZ01000101
Betaproteobacteria
Hydrogenophaga sp. A37 [MUNZ]
95320
95393
+
Cys
GCA
[ENA]
¡û
>C171091635
CP019236
Betaproteobacteria
Rhodoferax koreense DCY-110 [CP019236]
2432266
2432339
+
Cys
GCA
-
¡û
>WENV180691435
OCZS010123469
[OCZS] soil metagenome; soil
598
525
-
Cys
GCA
[ENA]
¡û
>WENV180835971
ODKE01023884
[ODKE] human metagenome; G_DNA_Supragingival plaque
1134
1061
-
Cys
GCA
[ENA]
¡û
>WENV181049513
ODYD01000442
[ODYD] human metagenome; G_DNA_Supragingival plaque
110
183
+
Cys
GCA
[ENA]
¡û
>WENV181070536
OEAE01003013
[OEAE] human metagenome; G_DNA_Supragingival plaque
5357
5284
-
Cys
GCA
[ENA]
¡û
>WENV181108226
OEEI01153789
[OEEI] human metagenome; G_DNA_Supragingival plaque
64
137
+
Cys
GCA
[ENA]
¡û
>WENV181364792
OFPD01000150
[OFPD] sediment metagenome; Lake sediment
2550
2623
+
Cys
GCA
[ENA]
¡û
>WENV181367193
OFPW01001345
[OFPW] freshwater metagenome; Freshwater Lake
417
344
-
Cys
GCA
[ENA]
¡û
>WENV181368047
OFQG01000347
[OFQG] freshwater metagenome; Freshwater Lake
150
77
-
Cys
GCA
[ENA]
¡û
>WENV181370356
OFQS01005198
[OFQS] freshwater metagenome; Freshwater Lake
1060
987
-
Cys
GCA
[ENA]
¡û
>WENV181384059
OFRH01011944
[OFRH] wastewater metagenome; Exp Tend NO 100WW
117
190
+
Cys
GCA
[ENA]
¡û
>W141214278
AZSO01000045
Betaproteobacteria
Hydrogenophaga sp. T4 [AZSO]
2578
2505
-
Cys
GCA
[ENA]
¡û
>WENV183735242
PJUA01005410
[PJUA] soil metagenome; Soil enriched on filter paper: beechwood xylan treatment
118
191
+
Cys
GCA
[ENA]
¡û
>WENV183741429
PJUG01000010
[PJUG] feces metagenome; Chicken feces (2) enriched on wood chips: beechwood xylan treatment
138340
138267
-
Cys
GCA
[ENA]
¡û
>WENV170018859
BBPD01001601
[BBPD] groundwater metagenome; The Cedars highly-alkaline serpentinizing springs in California
8676
8749
+
Cys
GCA
[ENA]
¡û
>WENV170553130
CXWK01008755
[CXWK] wastewater metagenome; activated sludge
471
398
-
Cys
GCA
[ENA]
¡û
>WENV170639736
JFJP01006463
[JFJP] microbial mat metagenome; purple microbial (photo- and chemosynthetic) mats found in low-oxygen high-sulfur sink
8474
8547
+
Cys
GCA
[ENA]
¡û
>WENV170651897
JRYG01011762
[JRYG] activated sludge metagenome; activated biomass of a wastewater treatment plant treating hydrocarbon contaminated
133
206
+
Cys
GCA
[ENA]
¡û
>WENV170705542
LNAO01002103
[LNAO] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
232
159
-
Cys
GCA
[ENA]
¡û
>WENV170705544
LNAO01002141
[LNAO] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
2336
2409
+
Cys
GCA
[ENA]
¡û
>WENV170707957
LNAP01041664
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
1114
1187
+
Cys
GCA
[ENA]
¡û
>WENV170712307
LNFM01012045
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
10675
10748
+
Cys
GCA
[ENA]
¡û
>WENV170713058
LNFM01023121
[LNFM] activated carbon metagenome; dual media filters at the Ann Arbor, Michigan drinking water treatment plant
10230
10157
-
Cys
GCA
[ENA]
¡û
>WENV171003035
NKIC01007824
[NKIC] algae metagenome; Clonal culture of Asterionella formosa BG1 isolated from Esthwaite Water
407
334
-
Cys
GCA
[ENA]
¡û
>WENV171003619
NNBU01000839
[NNBU] plant metagenome; symbiotic tissue sample KVJ2
15734
15661
-
Cys
GCA
[ENA]
¡û
>C181078467
CP023284
Betaproteobacteria
Variovorax boronicumulans J1 [CP023284]
3400603
3400676
+
Cys
GCA
-
¡û
>C181159410
CP027773
Betaproteobacteria
Variovorax sp. PMC12 [CP027773, CP027774]
1574587
1574514
-
Cys
GCA
-
¡û
>C191163879
CP039252
Betaproteobacteria
Hydrogenophaga sp. PAMC20947 [CP039252]
662991
663064
+
Cys
GCA
-
¡û
>W1910700025
MESC01000449
Betaproteobacteria
Burkholderiales bacterium RIFCSPHIGHO2_12_FULL_67_38 [MESC]
6251
6178
-
Cys
GCA
[ENA]
¡û
>W1910700137
MESF01000186
Betaproteobacteria
Burkholderiales bacterium RIFCSPLOWO2_02_FULL_66_35 [MESF]
39507
39580
+
Cys
GCA
[ENA]
¡û
>W1910700151
MESG01000046
Betaproteobacteria
Burkholderiales bacterium RIFCSPLOWO2_02_FULL_67_64 [MESG]
14274
14347
+
Cys
GCA
[ENA]
¡û
>W1910700187
MESH01000157
Betaproteobacteria
Burkholderiales bacterium RIFCSPLOWO2_12_67_14 [MESH]
42080
42007
-
Cys
GCA
[ENA]
¡û
>W1910700406
MESM01000275
Betaproteobacteria
Burkholderiales bacterium RIFCSPLOWO2_12_FULL_67_210 [MESM]
2519
2592
+
Cys
GCA
[ENA]
¡û
>W1910792821
MRCN01000004
Betaproteobacteria
Variovorax boronicumulans ACN3 [MRCN]
296557
296484
-
Cys
GCA
[ENA]
¡û
>W1911496691
OCMW01000001
Betaproteobacteria
Variovorax sp. YR752 [OCMW]
3427551
3427624
+
Cys
GCA
[ENA]
¡û
>W1911502800
OEQA01000007
Betaproteobacteria
Ottowia sp. Marseille-P4747 [OEQA]
124131
124058
-
Cys
GCA
[ENA]
¡û
>W1911647358
QAJK01000099
Betaproteobacteria
Variovorax sp. KBW07 [QAJK]
12225
12298
+
Cys
GCA
[ENA]
¡û
>W1911775297
QXMN01000001
Betaproteobacteria
Acidovorax cavernicola 1011MAR4D40.2 [QXMN]
136658
136731
+
Cys
GCA
[ENA]
¡û
>W1810046197
NNBQ01000004
Betaproteobacteria
Variovorax sp. B4 [NNBQ]
732460
732387
-
Cys
GCA
[ENA]
¡û
>W1810046281
NNBR01000003
Betaproteobacteria
Variovorax sp. B2 [NNBR]
732472
732399
-
Cys
GCA
[ENA]
¡û
>W1810392055
PXZZ01000034
Betaproteobacteria
Variovorax sp. WS11 [PXZZ]
41455
41528
+
Cys
GCA
[ENA]
¡û
>W1810577614
QEOJ01000004
Betaproteobacteria
Rhodoferax sp. YR267 [QEOJ]
227588
227661
+
Cys
GCA
[ENA]
¡û
>W1810577616
QEOJ01000004
Betaproteobacteria
Rhodoferax sp. YR267 [QEOJ]
227853
227926
+
Cys
GCA
[ENA]
¡û
>W1810676095
QKLT01000002
Betaproteobacteria
Variovorax sp. GV042 [QKLT]
584757
584830
+
Cys
GCA
[ENA]
¡û
>W1810682477
QKUE01000004
Betaproteobacteria
Variovorax sp. GV004 [QKUE]
584757
584830
+
Cys
GCA
[ENA]
¡û
>W1810759444
QPJK01000008
Betaproteobacteria
Pseudorhodoferax soli DSM 21634 [QPJK]
271136
271063
-
Cys
GCA
[ENA]
¡û
>W2010108387
BKDI01000001
Betaproteobacteria
Variovorax boronicumulans c24 [BKDI]
1874865
1874792
-
Cys
GCA
[ENA]
¡û
>W2010833451
MESC01000449
Betaproteobacteria
Burkholderiales bacterium RIFCSPHIGHO2_12_FULL_67_38 [MESC]
6251
6178
-
Cys
GCA
[ENA]
¡û
>W2010833563
MESF01000186
Betaproteobacteria
Burkholderiales bacterium RIFCSPLOWO2_02_FULL_66_35 [MESF]
39507
39580
+
Cys
GCA
[ENA]
¡û
>W2010833577
MESG01000046
Betaproteobacteria
Burkholderiales bacterium RIFCSPLOWO2_02_FULL_67_64 [MESG]
14274
14347
+
Cys
GCA
[ENA]
¡û
>W2010833613
MESH01000157
Betaproteobacteria
Burkholderiales bacterium RIFCSPLOWO2_12_67_14 [MESH]
42080
42007
-
Cys
GCA
[ENA]
¡û
>W2010833832
MESM01000275
Betaproteobacteria
Burkholderiales bacterium RIFCSPLOWO2_12_FULL_67_210 [MESM]
2519
2592
+
Cys
GCA
[ENA]
¡û
>W2011161197
OEQA01000007
Betaproteobacteria
Ottowia sp. Marseille-P4747 [OEQA]
124131
124058
-
Cys
GCA
[ENA]
¡û
>W2011235342
QAJK01000099
Betaproteobacteria
Variovorax sp. KBW07 [QAJK]
12225
12298
+
Cys
GCA
[ENA]
¡û
>W2011328854
QXMN01000001
Betaproteobacteria
Acidovorax cavernicola 1011MAR4D40.2 [QXMN]
136658
136731
+
Cys
GCA
[ENA]
¡û
>W2011482828
RQXU01000004
Betaproteobacteria
Variovorax sp. T529 [RQXU]
13414
13341
-
Cys
GCA
[ENA]
¡û
>W2011495804
RXFR01000010
Betaproteobacteria
Variovorax sp. 553 [RXFR]
153812
153885
+
Cys
GCA
[ENA]
¡û
>W2011495858
RXFS01000010
Betaproteobacteria
Variovorax sp. 679 [RXFS]
151559
151486
-
Cys
GCA
[ENA]
¡û
>W2012046927
VIVL01000006
Betaproteobacteria
Variovorax sp. T529 [VIVL]
398625
398698
+
Cys
GCA
[ENA]
¡û
>W2012207477
VYGV01000006
Betaproteobacteria
Hydrogenophaga sp. D2P1 [VYGV]
930695
930622
-
Cys
GCA
[ENA]
¡û
>W2110519462
JAFNME010000001
Betaproteobacteria
Comamonas denitrificans MM2021_4 [JAFNME]
122342
122415
+
Cys
GCA
[ENA]
¡û
>W2110587523
JAHBAG010000001
Betaproteobacteria
Hydrogenophaga taeniospiralis LT3 [JAHBAG]
3966503
3966430
-
Cys
GCA
[ENA]
¡û
>C211067325
CP046508
Betaproteobacteria
Variovorax sp. RKNM96 [CP046508]
3125330
3125403
+
Cys
GCA
-
¡û
>C231096947
CP063400
Betaproteobacteria
Hydrogenophaga sp. SL48 [CP063400]
1276745
1276818
+
Cys
GCA
-
¡û
>C231139672
CP075183
Betaproteobacteria
Hydrogenophaga taeniospiralis LT2 [CP075183]
2179810
2179883
+
Cys
GCA
-
¡û
>C231461178
CP102931
Betaproteobacteria
Variovorax paradoxus JBCE486 [CP102931]
2626226
2626299
+
Cys
GCA
-
¡û
>C231541556
CP111109
Betaproteobacteria
Comamonadaceae bacterium AAW [CP111109]
4211051
4210978
-
Cys
GCA
-
¡û
>C241111950
CP046622
Betaproteobacteria
Variovorax paradoxus CSUSB [CP046622]
3318616
3318543
-
Cys
GCA
-
¡û
>C241150419
CP051461
Betaproteobacteria
Polaromonas vacuolata KCTC 22033 [CP051461]
2671945
2671872
-
Cys
GCA
-
¡û
>W2310006939
AOGK01000018
Betaproteobacteria
Hydrogenophaga taeniospiralis CCUG 15921 [AOGK]
53709
53782
+
Cys
GCA
[ENA]
¡û
>C11123609
CP002417
Betaproteobacteria
Variovorax paradoxus EPS [CP002417]
3684652
3684579
-
Cys
GCA
[Ensembl]
¡û
>W1511508940
JXQQ01000071
Betaproteobacteria
Variovorax paradoxus MEDvA23 [JXQQ]
67018
66945
-
Cys
GCA
[ENA]
¡û
>W1511554982
JZWI01000001
Betaproteobacteria
Variovorax paradoxus TBEA6 [JZWI]
13499
13426
-
Cys
GCA
[ENA]
¡û
>W1610047737
BBDP01000080
Betaproteobacteria
Variovorax sp. RA8 [BBDP]
1594
1521
-
Cys
GCA
[ENA]
¡û
>W1610074455
BCWR01000022
Betaproteobacteria
Hydrogenophaga taeniospiralis NBRC 102512 [BCWR]
49104
49031
-
Cys
GCA
[ENA]
¡û
>W1610722499
LMCQ01000023
Betaproteobacteria
Variovorax sp. Root318D1 [LMCQ]
234880
234953
+
Cys
GCA
[ENA]
¡û
>W1610723360
LMDI01000015
Betaproteobacteria
Rhizobacter sp. Root1221 [LMDI]
81186
81259
+
Cys
GCA
[ENA]
¡û
>W1610724117
LMDW01000016
Betaproteobacteria
Variovorax sp. Root411 [LMDW]
736915
736842
-
Cys
GCA
[ENA]
¡û
>W1610724824
LMEK01000012
Betaproteobacteria
Variovorax sp. Root434 [LMEK]
418324
418397
+
Cys
GCA
[ENA]
¡û
>W1610725436
LMEV01000017
Betaproteobacteria
Variovorax sp. Root473 [LMEV]
1759326
1759253
-
Cys
GCA
[ENA]
¡û
>W1610736081
LMNA01000007
Betaproteobacteria
Pseudorhodoferax sp. Leaf274 [LMNA]
139270
139343
+
Cys
GCA
[ENA]
¡û
>W1610744260
LMTS01000193
Betaproteobacteria
Variovorax sp. WDL1 [LMTS]
2237
2310
+
Cys
GCA
[ENA]
¡û
>W1610954385
LVHG01000083
Betaproteobacteria
Variovorax paradoxus [LVHG]
33970
33897
-
Cys
GCA
[ENA]
¡û
>W1610977568
LVWD01000013
Betaproteobacteria
Hydrogenophaga crassostreae LPB0072 [LVWD]
549641
549568
-
Cys
GCA
[ENA]
¡û
>W1710044247
BBDP01000080
Betaproteobacteria
Variovorax sp. RA8 [BBDP]
1594
1521
-
Cys
GCA
[ENA]
¡û
>W1710071573
BCWR01000022
Betaproteobacteria
Hydrogenophaga taeniospiralis NBRC 102512 [BCWR]
49104
49031
-
Cys
GCA
[ENA]
¡û
>W1710512958
FMZU01000016
Betaproteobacteria
Variovorax sp. CF079 [FMZU]
108507
108580
+
Cys
GCA
[ENA]
¡û
>W1710530031
FNOL01000009
Betaproteobacteria
Variovorax sp. YR634 [FNOL]
71053
71126
+
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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