GtRNAdb

tRNAscan-SE Analysis of Nocardioides JS614

>> Main Overview
>> tRNAs by Isotype
>> tRNAs by Locus
>> Secondary Structures
>> tRNA Alignments
>> FASTA Seqs
>> Run Options/Stats
>> Analysis Notes
>> UCSC Genome Browser
>> Genome DB
>> Genome Seq
Structurally Aligned tRNAs (by Isotype & Anticodon)

Structural alignments are generated by aligning tRNA sequences against domain-specific tRNA covariance models with the use of COVE.


[Ala] [Arg] [Asn] [Asp] [Cys] [Gln] [Glu] [Gly] [His] [Ile] [Leu] [Lys] [Met] [Phe] [Pro] [Ser] [Thr] [Trp] [Tyr] [Val]
[Suppressor] [Selenocysteine]


Ala tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCTGTGGCGCAGCTGGTAGCGCATCTGCATGGCATGCAGAGG...........GtCAGGGGTTCGAGTCCCCTCAGCTCCACCG chr.trna17-AlaGGC Sc: 83.67 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCTGTGGCGCAGTTGGTAGCGCGTCTCGTTCGCAATGAGAAG...........GtCAGGGGTTCGAATCCCCTCAGCTCCACCA chr.trna12-AlaCGC Sc: 91.13 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCTTGGCGCAATTGGTAGCGCACCTGCTTTGCAAGCAGGGG...........GtTAGGGGTTCGAGTCCCCTAGGCTCCACCA chr.trna2-AlaTGC Sc: 96.01

Arg tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCCCGTAGCTCAAC.GGAtA.GAGCATCTGACTACGGATCAGAAG...........GtTTGGGGTTCGAATCCCTACGGGCGCG... chr.trna5-ArgACG Sc: 72.30 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCTCCGTAGCTCAGG.GGAtA.GAGCACTGGTTTCCGGTACCAGGT...........GcCGCAGGTTCGAATCCTGCCGGGGGCG... chr.trna38-ArgCCG Sc: 65.10 >>>>>>>..>>>>..........<<<<...>>>.......<<<..................>>>>>.......<<<<<<<<<<<<.... GCCCCAGTAGCTCAGC.GGAtA.GAGCAGCCGCCTCCTAAGCGAAAG...........GtCGCAGGTTCGACTCCTGCCTGGGGCGCCC chr.trna43-ArgCCT Sc: 73.81 >>>>>>>..>>>>..........<<<<.>>>>.........<<<<................>>>>>.......<<<<<<<<<<<<.... GCCCCCGTAGCTCAGCTGGAtA.GAGCAGCGGCCTTCTAATCCGCCG...........GtCGCAGGTTCGAGTCCTGCCGGGGGCGCCT chr.trna39-ArgTCT Sc: 83.25

Asn tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... TCCCCTGTAGCTCAACTGGCAGAGCATTCGGCTGTTAACCGGAGG...........GtTGTTGGTTCGAGTCCAACCGGGGGAG... chr.trna18-AsnGTT Sc: 72.45

Asp tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGCCCCGTAGCGCAGTTGGTtAGCGCGCCGCCCTGTCACGGCGGAG...........GcCGCGGGTTCGAGTCCCGTCGGGGTCGCCA chr.trna28-AspGTC Sc: 92.22

Cys tRNAs

>>>>>>>..>>>..........<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GGTGGGTTGGCCGAGAGGCG.AGGCAACGGACTGCAAATCCGTGT...........ACACGGGTTCAAATCCCGTACCCACCTCCA chr.trna36-CysGCA Sc: 71.95

Gln tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<....................>>>>>.......<<<<<.<<<<<<<.... TGGGATATGGTGTAATTGGC..AGCACGACTGGTTCTGGTCCAGTTA...............G.TCTAGGTTCGAGTCCTAG.TATCCCAGCGA chr.trna32-GlnCTG Sc: 59.33 >>>>>>>..>>.>..........<.<<.>>>>>.......<<<<<....................>>>>>.......<<<<<.<<<<<<<.... TCCCCGGTTGGTCTGCCGGCagGGCCCGCCTGACTTTGAATCAGGA.CTAGc..........GaCGTAGGTTCGACTCCTAC.CCGGGGAG... chr.trna13-GlnTTG Sc: 34.36

Glu tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCCCCGTTGTGTAGCGGCctA.GCACGCCGCCCTCTCAAGGCGGTA...........GCGCCGGTTCGAATCCGGTCGGGGGTACCA chr.trna33-GluCTC Sc: 72.19 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCCCCATCGTCTAGCGGCccA.GGACCCCGCCCTTTCACGGCGGTA...........GCACGGGTTCGAATCCCGTTGGGGGTGCGA chr.trna27-GluTTC Sc: 54.80

Gly tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGACGTAGCTCAGTTGGTA.GAGCGCAACCTTGCCAAGGTTGAG...........GtCGCGAGTTCGAGCCTCGTCGTCCGCT... chr.trna35-GlyGCC Sc: 84.38 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGATGTAGCTCAGTTGGTA.GAGCGCGACCTTCCCAAGGTCGAT...........GtCGCGAGTTCGAGTCTCGTCATCCGCTCCA chr.trna26-GlyCCC Sc: 90.98 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGATGTAGCTCAAT.GGTA.GAGCCCCAGTCTTCCAAACTGGCT...........A.CGCGGGTTCGATTCCCGTCATCCGCTCCA chr.trna30-GlyTCC Sc: 81.19

His tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GTGGGTGTAGCTCAGCTGGTAGAGCACCTGGTTGTGGTCCAGGTG...........GcCGCGGGTTCAAGTCCCGTCACTCACCCCA chr.trna40-HisGTG Sc: 81.01

Ile tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCTATAGCTCAGACGGTtAGAGCGCTTCCCTGATAAGGAAGAG...........GtCACAGGTTCAAGTCCTGTTAGGCCCA... chr.trna1-IleGAT Sc: 87.95

Leu tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<..>>>>.............<<<<...>>>>>.......<<<<<.<<<<<<<.... GTCCGGGTGGCGGAATTGGCaGACGCGCTAGCTTGAGGTGCTAGT.GCCC.GTATta......GGGCG.TGGGGGTTCAAGTCCCCC.CTCGGACACCC chr.trna34-LeuGAG Sc: 56.60 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..>>>>.............<<<<...>>>>>.......<<<<<.<<<<<<<.... GCGCGAGTGGCGGAATAGGCaGACGCGCACGGTTCAGGTCCGTGT.GTCC.GAAA........GGACG.TGGGGGTTCAACTCCCCC.CTCGCGCA... chr.trna3-LeuCAG Sc: 63.31 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..>>>>.............<<<<...>>>>>.......<<<<<.<<<<<<<.... GCCGAAGTGGTGGAACTGGCaGACACGCGGGTTTTAGGTACCCGT.GCCTT...........CGGGCG.TGGGGGTTCAAGTCCCCC.CTTCGGCACCC chr.trna42-LeuTAG Sc: 61.47 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..........................>>>>>.......<<<<<.<<<<<<<.... GCCCCGGTATCCCAACCGGCaGAGGAAGCGGTCTCAAACACCGTCC.....................AgTGTGGGTTCGAATCCCAC.CCGGGGCA... chr.trna23-LeuCAA Sc: 48.77 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..........................>>>>>.......<<<<<.<<<<<<<.... GCCCCCGTATCCCAACCGGCaGAGGAAGCCGCCTTAAAAGCGGCGC.....................AgTCTGGGTTCGAGTCCCAG.CGGGGGCACCA chr.trna14-LeuTAA Sc: 59.80

Lys tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCCATTAGCTCAATTGGCAGAGCAGCTGACTCTTAATCAGCGG...........GtTCGGGGTTCGAGTCCCTGATGGCGTACCG chr.trna41-LysCTT Sc: 81.49 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCTCTAGCTCAACTGGCAGAGCAGCGGACTTTTAATCCGCGG...........GtTGTGGGTTCGAGACCCACGGGGCCCACTA chr.trna24-LysTTT Sc: 75.77

Met tRNAs

>>>>>>>...>>>>............<<<<........>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCGG.TAGCTCAGTC.GGTc.A.GAGCA.......GAGGACTCATAATCCTTGG...........GtCGTGGGTTCGAGCCCCACCCGCCCCACCA chr.trna19-MetCAT Sc: 94.58 GGCGGGG.TAGCTCAGGT.GGTt.A.GAGCA.......CACGGCTCATAATCGTGGT...........GtCGCGGGTTCGAGTCCCGCCCCCGCTA... chr.trna10-MetCAT Sc: 82.28 .>>>>>>...>>>>............<<<<........>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<..... CGCGGGG.TGGAGCAGCTcGGT..A.GCTCG.......CTGGGCTCATAACCCAGAG...........GtCGCAGGTTCAAATCCTGCCCCCGCTACAA chr.trna15-MetCAT Sc: 80.42 >>>>.>>...>>................<<........>>>.>.......<.<<<................>>>>>.......<<<<<<<.<<<<.... AGCGTGGcTTGCAGAGC..GGCttG.AGGCActtcagaTTGCGCTCATAACCCAGAG...........GtCGCAGGTTCAAATCCTGCCCCCGCTACAA chr.trna16-MetCAT Sc: 25.21

Phe tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCAGGTAGCTCAGTCGGTaCGAGCGTCCGCCTGAAAAGTGGAAG...........GtCGGCGGTTCGACCCCGCCCCTGCCCACAA chr.trna25-PheGAA Sc: 74.31

Pro tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... CGGGCTGTGGCGCAGCTtGGT.A.GCGCACTTGACTGGGGGTCAAGGG...........GtCGCAGGTTCAAATCCTGTCAGCCCGACCG chr.trna22-ProGGG Sc: 79.87 >>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... CGGGCTGTGGCGCAGCTtGGT.A.GCGCGCCTCGTTCGGGACGAGGAG...........GcCGCAGGTTCAAATCCTGTCAGCCCGACCA chr.trna44-ProCGG Sc: 86.74 >>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... CGGGGCGTAGCGTAGT..GGCtA.GCGCGCCTGCTTTGGGAGCAGGAG...........AtCGCAGGTTCGAGTCCTGTCGCCCCGA... chr.trna31-ProTGG Sc: 79.88

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>..............<<<.>>>>>.......<<<<<..>>.>.........<.<<...>>>>>.......<<<<<..<<<<<<<.... GGAGGATTCGCCTAGT..GGCctA.TGGCGCTCGCTTGGAAAGCGGGTTGGGT..TAAT...AGCCCtCAGGGGTTCGAATCCCCT..ATCCTCCGCCA chr.trna45-SerGGA Sc: 65.18 >>>>>>>..>>>..............<<<.>>>>>.......<<<<<..>>>>>>.....<<<<<<...>>>>>.......<<<<<..<<<<<<<.... GGTGGCGTGTCCGAGC..GGCctA.AGGAGAACGCCTCGAAAGCGTTT.GTGGGTGCAA.GCCCAC..CGAGGGTTCAAATCCCTC..CGCCACCGCCA chr.trna6-SerCGA Sc: 70.62 >>>>>>>..>>>>............<<<<.>>>>>.......<<<<<..>>>>>.......<<<<<...>>>>>.......<<<<<..<<<<<<<.... GGAGGGGTGCCGGAGT..GGCcgA.TCGGAACCGCCTTGAAAGCGGTC.GTAGG.GAGA..CCTAC..CGCGGGTTCGAATCCCGC..CCCCTCTGCCC chr.trna46-SerTGA Sc: 57.45 >>>>>>>..>>>..............<<<.>>>>>.......<<<<<..>.>>>.......<<<.<...>>>>>.......<<<<<..<<<<<<<.... GGAGGCGTCGCCTAGTCcGGTctA.TGGCGCCCGCCTGCTAAGCGGGTTGAGGG.CAAA..CCCCTCtCGCGGGTTCAAATCCCGC..CGCCTCCGCCA chr.trna4-SerGCT Sc: 71.22

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCCCTTTAGCTCAGTCGGCAGAGCGTCTCCATGGTAAGGAGAAG...........GtCTACGGTTCGATTCCGTAAAGGGGCT... chr.trna9-ThrGGT Sc: 75.06 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCTTAGCTCAGTCGGTAGAGCGTCTCACTCGTAATGAGAAG...........GtCGTCGGTTCGATTCCGACAGGCGGCTCCA chr.trna7-ThrCGT Sc: 94.87 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGGTGTAGCTCAGTTGGTAGAGCGCCTCACTTGTAATGAGGAT...........GtCGCGGGTTCGACTCCTGTCACCGGCTCCA chr.trna29-ThrTGT Sc: 94.21

Trp tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... AGGGCACTAGCTCAACTGGCAGAGCATCGGTCTCCAAAACCGAAG...........GtTGGGGGTTCAAGTCCCTCGTGCCCTGCAA chr.trna11-TrpCCA Sc: 76.65

Tyr tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GGCAGGTTGCCCGAGCGGCcaA.TGGGAGCGGACTGTAAATCCGTCGGCTTT.....GCCTtCGAAGGTTCGAATCCTTC.ACCTGCCA... chr.trna8-TyrGTA Sc: 57.50

Val tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGATTGGCGCAGTGGTA.GCGCGCTTCCTTGACACGGAAGAG...........GtCACTGGTTCAAACCCAGTATCGCCCACCA chr.trna37-ValGAC Sc: 89.57 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGATTGGCGCAGTGGTA.GCGCGCTTCGTTCACACCGAAGAG...........GtCACTGGTTCGAACCCAGTATCGCCCACCG chr.trna21-ValCAC Sc: 81.53 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGTATAGCTCAGCGGTA.GAGCACCTCCCTTACAAGGAGGTG...........GtCGGGGGTTCGATCCCCTCTGCGCCCACCC chr.trna20-ValTAC Sc: 86.19

The Genomic tRNA Database is curated by Todd Lowe and Patricia Chan. Please email lowe@soe.ucsc.edu with any questions and comments. To submit corrections, please use our Bug and Request Tracking System.