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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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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.45122 (80 seq.)
>W1710808917
LKDZ01000014
Betaproteobacteria
Variovorax boronicumulans [LKDZ]
4183
4096
-
Ser
TGA
[ENA]
¡û
>W1710860136
LMCQ01000019
Betaproteobacteria
Variovorax sp. Root318D1 [LMCQ]
196014
196101
+
Ser
TGA
[ENA]
¡û
>W1710861755
LMDW01000004
Betaproteobacteria
Variovorax sp. Root411 [LMDW]
36666
36751
+
Ser
TGA
[ENA]
¡û
>W1710862496
LMEK01000022
Betaproteobacteria
Variovorax sp. Root434 [LMEK]
22287
22200
-
Ser
TGA
[ENA]
¡û
>W1710863071
LMEV01000003
Betaproteobacteria
Variovorax sp. Root473 [LMEV]
27746
27659
-
Ser
TGA
[ENA]
¡û
>W1710882338
LMTS01000203
Betaproteobacteria
Variovorax sp. WDL1 [LMTS]
16107
16194
+
Ser
TGA
[ENA]
¡û
>W1711123827
LUJJ01000018
Betaproteobacteria
Variovorax boronicumulans [LUJJ]
126356
126443
+
Ser
TGA
[ENA]
¡û
>W1711143371
LVHG01000063
Betaproteobacteria
Variovorax paradoxus [LVHG]
17776
17689
-
Ser
TGA
[ENA]
¡û
>W1711386507
MEFM01000024
Betaproteobacteria
Variovorax sp. SCN 67-85 [MEFM]
42560
42647
+
Ser
TGA
[ENA]
¡û
>W1711387485
MEGR01000021
Betaproteobacteria
Variovorax sp. SCN 67-20 [MEGR]
42560
42647
+
Ser
TGA
[ENA]
¡û
>W1711506621
MKWO01000019
Betaproteobacteria
Variovorax sp. 67-131 [MKWO]
92716
92629
-
Ser
TGA
[ENA]
¡û
>W131174618
ARIP01000036
Betaproteobacteria
Variovorax paradoxus 4MFCol3.1 [ARIP]
12795
12882
+
Ser
TGA
[ENA]
¡û
>W131180331
ARNA01000040
Betaproteobacteria
Variovorax paradoxus 110B [ARNA]
26073
26160
+
Ser
TGA
[ENA]
¡û
>WENV181364811
OFPD01002182
[OFPD] sediment metagenome; Lake sediment
883
797
-
Ser
TGA
[ENA]
¢þ
>WENV181365356
OFPO01001724
[OFPO] sediment metagenome; Lake sediment
96
182
+
Ser
TGA
[ENA]
¢þ
>W141170122
AXXB01000028
Betaproteobacteria
Variovorax sp. JGI 0001016-C20 [AXXB]
2360
2273
-
Ser
TGA
[ENA]
¡û
>W141170380
AXXT01000021
Betaproteobacteria
Variovorax sp. JGI 0001013-L10 [AXXT]
1102
1015
-
Ser
TGA
[ENA]
¡û
>WENV183735199
PJUA01002590
[PJUA] soil metagenome; Soil enriched on filter paper: beechwood xylan treatment
783
868
+
Ser
TGA
[ENA]
¢þ
>WENV183735726
PJUB01000932
[PJUB] soil metagenome; Soil enriched on filter paper: alkali lignin treatment
1020
1105
+
Ser
TGA
[ENA]
¢þ
>WENV183736322
PJUC01000707
[PJUC] soil metagenome; Soil enriched on filter paper
9587
9502
-
Ser
TGA
[ENA]
¢þ
>WENV183741580
PJUG01000086
[PJUG] feces metagenome; Chicken feces (2) enriched on wood chips: beechwood xylan treatment
46625
46538
-
Ser
TGA
[ENA]
¢þ
>WENV183742031
PJUH01000085
[PJUH] feces metagenome; Chicken feces (2) enriched on wood chips: alkali lignin treatment
7692
7779
+
Ser
TGA
[ENA]
¢þ
>WENV183744345
PJUK01009276
[PJUK] feces metagenome; Chicken feces enriched on filter paper: alkali lignin treatment
340
254
-
Ser
TGA
[ENA]
¢þ
>WENV170559438
CXWL01123401
[CXWL] groundwater metagenome; biofilm material
1960
1873
-
Ser
TGA
[ENA]
¢þ
>WENV170706420
LNAP01003066
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
9453
9540
+
Ser
TGA
[ENA]
¢þ
>WENV170706526
LNAP01003917
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
14062
13975
-
Ser
TGA
[ENA]
¢þ
>WENV170707037
LNAP01011257
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
13
100
+
Ser
TGA
[ENA]
¢þ
>WENV170708415
LNAP01079571
[LNAP] soil metagenome; Soil samples (1 kg each in a 20% v/v slurry with milli Q water) were incubated in the dark with
894
807
-
Ser
TGA
[ENA]
¢þ
>WENV171003371
NNBT01007449
[NNBT] plant metagenome; symbiotic tissue sample KVJ10
418
505
+
Ser
TGA
[ENA]
¢þ
>WENV171003597
NNBU01000667
[NNBU] plant metagenome; symbiotic tissue sample KVJ2
19835
19922
+
Ser
TGA
[ENA]
¢þ
>C181078485
CP023284
Betaproteobacteria
Variovorax boronicumulans J1 [CP023284]
5886296
5886209
-
Ser
TGA
-
¡û
>C181159385
CP027773
Betaproteobacteria
Variovorax sp. PMC12 [CP027773, CP027774]
5166800
5166887
+
Ser
TGA
-
¡û
>W09119961
ACEE01000055
Betaproteobacteria
Variovorax paradoxus S110 [ACEE]
9124
9037
-
Ser
TGA
[ENA]
¡û
>C141002562
CP003911
Betaproteobacteria
Variovorax paradoxus B4 [CP003911, CP003912]
4740974
4740887
-
Ser
TGA
[Ensembl]
¡û
>W1910792832
MRCN01000009
Betaproteobacteria
Variovorax boronicumulans ACN3 [MRCN]
171779
171692
-
Ser
TGA
[ENA]
¡û
>C09111115
CP001635
Betaproteobacteria
Variovorax paradoxus [CP001635]
4568325
4568238
-
Ser
TGA
[Ensembl]
¡û
>W1911496678
OCMW01000001
Betaproteobacteria
Variovorax sp. YR752 [OCMW]
1537393
1537480
+
Ser
TGA
[ENA]
¡û
>W1911647352
QAJK01000065
Betaproteobacteria
Variovorax sp. KBW07 [QAJK]
67585
67498
-
Ser
TGA
[ENA]
¡û
>W1911709239
QPIB01000043
Betaproteobacteria
Xenophilus sp. E41 [QPIB]
400096
400183
+
Ser
TGA
[ENA]
¡û
>W1911775322
QXMN01000023
Betaproteobacteria
Acidovorax cavernicola 1011MAR4D40.2 [QXMN]
56461
56374
-
Ser
TGA
[ENA]
¡û
>W1810072245
PEFF01000001
Betaproteobacteria
Variovorax sp. 54 [PEFF]
2112134
2112047
-
Ser
TGA
[ENA]
¡û
>W1810192701
PKMT01000001
Betaproteobacteria
Variovorax sp. RO1 [PKMT]
694574
694661
+
Ser
TGA
[ENA]
¡û
>W1810486687
QAYA01000026
Betaproteobacteria
Variovorax sp. GV040 [QAYA]
33342
33427
+
Ser
TGA
[ENA]
¡û
>W1810577529
QEOH01000004
Betaproteobacteria
Variovorax sp. GV014 [QEOH]
200920
200833
-
Ser
TGA
[ENA]
¡û
>W1810672558
QJTM01000024
Betaproteobacteria
Variovorax sp. GV035 [QJTM]
33342
33427
+
Ser
TGA
[ENA]
¡û
>W1810676126
QKLT01000027
Betaproteobacteria
Variovorax sp. GV042 [QKLT]
33342
33427
+
Ser
TGA
[ENA]
¡û
>W1810682496
QKUE01000024
Betaproteobacteria
Variovorax sp. GV004 [QKUE]
17464
17379
-
Ser
TGA
[ENA]
¡û
>SRA1014665
SRR023845.250515
Community proteogenomics reveals insights into the physiology of phyllosphere bacteria (SRP001120)
205
118
-
Ser
TGA
[SRA]
>SRA1015034
SRR023845.428102
Community proteogenomics reveals insights into the physiology of phyllosphere bacteria (SRP001120)
239
152
-
Ser
TGA
[SRA]
>C11123593
CP002417
Betaproteobacteria
Variovorax paradoxus EPS [CP002417]
5380778
5380691
-
Ser
TGA
[Ensembl]
¡û
>W1511508949
JXQQ01000114
Betaproteobacteria
Variovorax paradoxus MEDvA23 [JXQQ]
16415
16328
-
Ser
TGA
[ENA]
¡û
>W1511555014
JZWI01000030
Betaproteobacteria
Variovorax paradoxus TBEA6 [JZWI]
16287
16374
+
Ser
TGA
[ENA]
¡û
>C161073167
CP014517
Betaproteobacteria
Variovorax sp. PAMC 28711 [CP014517]
2938927
2939014
+
Ser
TGA
[Ensembl]
¡û
>W1610072165
BCUS01000051
Betaproteobacteria
Variovorax boronicumulans NBRC 103145 [BCUS]
31059
31146
+
Ser
TGA
[ENA]
¡û
>W1610072216
BCUT01000005
Betaproteobacteria
Variovorax paradoxus NBRC 15149 [BCUT]
286859
286946
+
Ser
TGA
[ENA]
¡û
>W121084977
AKIW01000077
Betaproteobacteria
Variovorax sp. CF313 [AKIW]
116187
116100
-
Ser
TGA
[ENA]
¡û
>W1610722482
LMCQ01000019
Betaproteobacteria
Variovorax sp. Root318D1 [LMCQ]
196014
196101
+
Ser
TGA
[ENA]
¡û
>W1610724101
LMDW01000004
Betaproteobacteria
Variovorax sp. Root411 [LMDW]
36666
36751
+
Ser
TGA
[ENA]
¡û
>W1610724842
LMEK01000022
Betaproteobacteria
Variovorax sp. Root434 [LMEK]
22287
22200
-
Ser
TGA
[ENA]
¡û
>W1610725417
LMEV01000003
Betaproteobacteria
Variovorax sp. Root473 [LMEV]
27746
27659
-
Ser
TGA
[ENA]
¡û
>W1610744264
LMTS01000203
Betaproteobacteria
Variovorax sp. WDL1 [LMTS]
16107
16194
+
Ser
TGA
[ENA]
¡û
>W1610954379
LVHG01000063
Betaproteobacteria
Variovorax paradoxus [LVHG]
17776
17689
-
Ser
TGA
[ENA]
¡û
>W1710069367
BCUS01000051
Betaproteobacteria
Variovorax boronicumulans NBRC 103145 [BCUS]
31059
31146
+
Ser
TGA
[ENA]
¡û
>W1710069418
BCUT01000005
Betaproteobacteria
Variovorax paradoxus NBRC 15149 [BCUT]
286859
286946
+
Ser
TGA
[ENA]
¡û
>W1710506180
FMUJ01000002
Betaproteobacteria
Variovorax sp. EL159 [FMUJ]
17508
17593
+
Ser
TGA
[ENA]
¡û
>W1710517945
FNDR01000004
Betaproteobacteria
Variovorax sp. OV700 [FNDR]
124021
123934
-
Ser
TGA
[ENA]
¡û
>W1710530058
FNOL01000035
Betaproteobacteria
Variovorax sp. YR634 [FNOL]
23905
23818
-
Ser
TGA
[ENA]
¡û
>W1710531387
FNPM01000017
Betaproteobacteria
Variovorax sp. YR266 [FNPM]
40014
40101
+
Ser
TGA
[ENA]
¡û
>W1710534031
FNRO01000003
Betaproteobacteria
Variovorax sp. YR216 [FNRO]
617510
617597
+
Ser
TGA
[ENA]
¡û
>W1710538184
FNUI01000031
Betaproteobacteria
Variovorax sp. NFACC28 [FNUI]
6256
6169
-
Ser
TGA
[ENA]
¡û
>W1710539591
FNVM01000033
Betaproteobacteria
Variovorax sp. NFACC29 [FNVM]
25632
25719
+
Ser
TGA
[ENA]
¡û
>W1710542732
FNZJ01000013
Betaproteobacteria
Variovorax sp. OK202 [FNZJ]
175193
175108
-
Ser
TGA
[ENA]
¡û
>W1710545325
FOBJ01000027
Betaproteobacteria
Variovorax sp. YR750 [FOBJ]
25729
25816
+
Ser
TGA
[ENA]
¡û
>W1710554317
FOII01000025
Betaproteobacteria
Variovorax sp. OV084 [FOII]
25914
26001
+
Ser
TGA
[ENA]
¡û
>W1710557177
FOKS01000033
Betaproteobacteria
Variovorax sp. NFACC26 [FOKS]
6242
6155
-
Ser
TGA
[ENA]
¡û
>W1710558173
FOLP01000013
Betaproteobacteria
Variovorax sp. OK212 [FOLP]
175193
175108
-
Ser
TGA
[ENA]
¡û
>W1710562293
FOOV01000045
Betaproteobacteria
Variovorax sp. NFACC27 [FOOV]
6238
6151
-
Ser
TGA
[ENA]
¡û
>W1710571847
FOWG01000001
Betaproteobacteria
Variovorax sp. PDC80 [FOWG]
1185431
1185344
-
Ser
TGA
[ENA]
¡û
>W1710572140
FOWL01000016
Betaproteobacteria
Variovorax sp. OK605 [FOWL]
152668
152755
+
Ser
TGA
[ENA]
¡û
>W1710573300
FOXJ01000004
Betaproteobacteria
Variovorax sp. 770b2 [FOXJ]
195907
195994
+
Ser
TGA
[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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