GtRNAdb

tRNAscan-SE Analysis of Streptococcus thermophilus LMG 18311

>> 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

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAG...........GtCAGCGGTTCGATCCCGCTAGGCTCCA... chr.trna61-AlaTGC Sc: 84.64 GGGGCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAG...........GtCAGCGGTTCGATCCCGCTAGGCTCCA... chr.trna45-AlaTGC Sc: 84.64 GGGGCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAG...........GtCAGCGGTTCGATCCCGCTAGGCTCCA... chr.trna43-AlaTGC Sc: 84.64 GGGGCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAG...........GtCAGCGGTTCGATCCCGCTAGGCTCCA... chr.trna33-AlaTGC Sc: 84.64 GGGGCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAG...........GtCAGCGGTTCGATCCCGCTAGGCTCCA... chr.trna19-AlaTGC Sc: 84.64 GGGGCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAG...........GtCAGCGGTTCGATCCCGCTAGGCTCCA... chr.trna1-AlaTGC Sc: 84.64

Arg tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCACCCTTAGCTCAACTGGAtA.GAGTACCTGACTACGAATCAGGCG...........GtTAGAGGTTCGACTCCTCT.AGGGTGCA... chr.trna9-ArgACG Sc: 74.41 GCACCCTTAGCTCAACTGGAtA.GAGTACCTGACTACGAATCAGGCG...........GtTAGAGGTTCGACTCCTCT.AGGGTGCA... chr.trna41-ArgACG Sc: 74.41 >>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCACCCTTAGTGTAAT.GGAtA.TCACGTAAGATTCCGGTTCTTGAG...........A.TAGGGGTTCGATTCCCTT.AGGGTGCA... chr.trna54-ArgCCG Sc: 53.23 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GTCCTCTTAGTTAAAT.GGAtA.TAACAACTCCCTCCTAAGGAGTC............GtTGCTGGTTCGATTCCGGC.AGGGGACA... chr.trna67-ArgCCT Sc: 60.36 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GGTCCCATAGCTCAGCTGGAtA.GAGCATTCGCCTTCTAAGCGAACG...........GtCGCAGGTTCGAATCCTGC.TGGGATCA... chr.trna56-ArgTCT Sc: 84.24

Asn tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... TCCGCCATAGCTCAGTTGGTaGTAGCGCATGACTGTTAATCATGAT...........GtCGTAGGTTCGAGTCCTACTGGCGGAG... chr.trna62-AsnGTT Sc: 76.37 TCCGCCATAGCTCAGTTGGTaGTAGCGCATGACTGTTAATCATGAT...........GtCGTAGGTTCGAGTCCTACTGGCGGAG... chr.trna58-AsnGTT Sc: 76.37 TCCGCCATAGCTCAGTTGGTaGTAGCGCATGACTGTTAATCATGAT...........GtCGTAGGTTCGAGTCCTACTGGCGGAG... chr.trna44-AsnGTT Sc: 76.37

Asp tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGTCCCGTGGTGTAGCGGTtA.TCACGTCGCCCTGTCACGGCGAAG...........AtCGCGGGTTCGATTCCCGTCGGGACCG... chr.trna47-AspGTC Sc: 72.61 GGTCCCGTGGTGTAGCGGTtA.TCACGTCGCCCTGTCACGGCGAAG...........AtCGCGGGTTCGATTCCCGTCGGGACCG... chr.trna35-AspGTC Sc: 72.61 GGTCCCGTGGTGTAGCGGTtA.TCACGTCGCCCTGTCACGGCGAAG...........AtCGCGGGTTCGATTCCCGTCGGGACCG... chr.trna3-AspGTC Sc: 72.61

Cys tRNAs

>>>>>>>..>>>..........<<<..>>>>.......<<<<................>.>>>.......<<<.<.<<<<<<<.... GGCGGTATAGCCAAGTGGTA.AGGCACGGCTCTGCAAAAGCTTG...........AtCGTCGGTTCAAATCCGTC.TACCGCCT... chr.trna32-CysGCA Sc: 60.11

Gln tRNAs

>>>>>>>..>>>..........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... TGGGGTATAGCCAAGCGGTA.AGGCAAGGGACTTTGACTCCCTCA...........TgCGTTGGTTCGAATCCAGCTACCCCAGTCA chr.trna53-GlnTTG Sc: 65.18 TGGGGTATAGCCAAGCGGTA.AGGCAAGGGACTTTGACTCCCTCA...........TgCGTTGGTTCGAATCCAGCTACCCCAG... chr.trna65-GlnTTG Sc: 64.56 TGGGGTATAGCCAAGCGGTA.AGGCAAGGGACTTTGACTCCCTCA...........TgCGTTGGTTCGAATCCAGCTACCCCAG... chr.trna30-GlnTTG Sc: 64.56

Glu tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GGTCCGTTGGTCAAGGGGTtA.AGACACCGCCTTTTCACGGCGGTA...........ACACGGGTTCGAATCCCGTACGGACTA... chr.trna66-GluTTC Sc: 64.66 GGTCCGTTGGTCAAGGGGTtA.AGACACCGCCTTTTCACGGCGGTA...........ACACGGGTTCGAATCCCGTACGGACTA... chr.trna57-GluTTC Sc: 64.66 GGTCCGTTGGTCAAGGGGTtA.AGACACCGCCTTTTCACGGCGGTA...........ACACGGGTTCGAATCCCGTACGGACTA... chr.trna51-GluTTC Sc: 64.66 GGTCCGTTGGTCAAGGGGTtA.AGACACCGCCTTTTCACGGCGGTA...........ACACGGGTTCGAATCCCGTACGGACTA... chr.trna23-GluTTC Sc: 64.66

Gly tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCGAACGTAGTTCAGTGGTA.GAACACCACCTTGCCAAGGTGGGG...........GtCGCGGGTTCGAATCCCGT.CGTTCGCT... chr.trna7-GlyGCC Sc: 83.78 GCGAACGTAGTTCAGTGGTA.GAACACCACCTTGCCAAGGTGGGG...........GtCGCGGGTTCGAATCCCGT.CGTTCGCT... chr.trna39-GlyGCC Sc: 83.78 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCGGGTGTAGTTTAGTGGTA.AAACTACAGCCTTCCAAGCTGTT............GtCGCGAGTTCGATTCTCGT.CACCCGCT... chr.trna21-GlyTCC Sc: 71.92 GCGGGTGTAGTTTAGTGGTA.AAACTACAGCCTTCCAAGCTGTT............GtCGCGAGTTCGATTCTCGT.CACCCGCT... chr.trna16-GlyTCC Sc: 71.92

His tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGAATGTGGTGAAGTGGTtA.ACACATCAGATTGTGGCTCTGACA...........TtCGGGGGTTCGATTCCCCTCATTCGCC... chr.trna29-HisGTG Sc: 67.29

Ile tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGCGTAGCTCAGATGGTtAGAGCGCACGCCTGATAAGCGTGAG...........GtCGGTGGTTCGATTCCACTCGTGCCCA... chr.trna22-IleGAT Sc: 86.10 GGGCGCGTAGCTCAGATGGTtAGAGCGCACGCCTGATAAGCGTGAG...........GtCGGTGGTTCGATTCCACTCGTGCCCA... chr.trna17-IleGAT Sc: 86.10

Leu tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>..........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGAAATGGCGGAATTGGCaG.ACGCGCAGGACTAAGGATCCTGTGACCG.TTTT...AGGTGgTGAGGGTTCGAGTCCCTC.TTTCCGCT... chr.trna60-LeuAAG Sc: 63.89 >>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>>........<<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGAGGTGGTGGAAT.GGCaG.ACACGCATGCTTCAGGCGCATGT.GCTT.TTTC...AAGCG.TGAGGGTTCAATTCCCTT.TCTCCGCA... chr.trna55-LeuCAG Sc: 55.90 >>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>..........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGTGTGGCGGAATTGGCaG.ACGCACCAGATTTAGGATCTGGC.GCT..TAAC....GGCG.TGGGGGTTCAAGTCCCTT.CACCCGCA... chr.trna5-LeuTAG Sc: 68.97 GCGGGTGTGGCGGAATTGGCaG.ACGCACCAGATTTAGGATCTGGC.GCT..TAAC....GGCG.TGGGGGTTCAAGTCCCTT.CACCCGCA... chr.trna49-LeuTAG Sc: 68.97 GCGGGTGTGGCGGAATTGGCaG.ACGCACCAGATTTAGGATCTGGC.GCT..TAAC....GGCG.TGGGGGTTCAAGTCCCTT.CACCCGCA... chr.trna37-LeuTAG Sc: 68.97 >>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>>........<<<<...>>>>>.......<<<<<.<<<<<<<.... GCCGGCGTGGCGGAATTGGCaG.ACGCGCTGGACTCAAAATCCAGT.GTCC.GCAA...GGACG.TGCCGGTTCGACCCCGGC.CGCCGGTA... chr.trna31-LeuCAA Sc: 70.28 >>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>>>......<<<<<...>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTGGCGGAACTGGCaG.ACGCACAGGACTTAAAATCCTGC.GAAAGGAAA..CTTTCG.TACCGGTTCGATTCCGGT.CCTCGGCA... chr.trna8-LeuTAA Sc: 68.86 GCCGGGGTGGCGGAACTGGCaG.ACGCACAGGACTTAAAATCCTGC.GAAAGGAAA..CTTTCG.TACCGGTTCGATTCCGGT.CCTCGGCA... chr.trna40-LeuTAA Sc: 68.86

Lys tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCTCCTTAGCTCAGTTGGTAGAGCAGTGGACTCTTAATCCATGG...........GtCACAGGTTCGAGCCCTGTAGGGGGCATCA chr.trna59-LysCTT Sc: 85.05 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GACTCGTTAGCTCAGTTGGTAGAGCAATTGACTTTTAATCAATGG...........GtCACTGGTTCGAGCCCAGTACGGGTCA... chr.trna48-LysTTT Sc: 82.17 GACTCGTTAGCTCAGTTGGTAGAGCAATTGACTTTTAATCAATGG...........GtCACTGGTTCGAGCCCAGTACGGGTCA... chr.trna4-LysTTT Sc: 82.17 GACTCGTTAGCTCAGTTGGTAGAGCAATTGACTTTTAATCAATGG...........GtCACTGGTTCGAGCCCAGTACGGGTCA... chr.trna36-LysTTT Sc: 82.17

Met tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCTTTAGCTCAACT.GGTtAGAGCACTCGGCTCATAACCGAGCG...........GtCGTAGGTTCGAGTCCTACAAGGTCCA... chr.trna12-MetCAT Sc: 89.74 GGCGGTGTAGCTCAGCT.GGCtAGAGCGTCCGGTTCATACCCGGGAG...........GtCGGGGGTTCGATCCCCTTCGCCGCTA... chr.trna11-MetCAT Sc: 76.98 .>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<..... CGCGGGATGGAGCAGCTaGGT.AGCTCGTCGGGCTCATAACCCGAAG...........GtCGTAGGTTCAAATCCTGCTCCCGCAA... chr.trna25-MetCAT Sc: 74.60 CGCGGGATGGAGCAGCTaGGT.AGCTCGTCGGGCTCATAACCCGAAG...........GtCGTAGGTTCAAATCCTGCTCCCGCAA... chr.trna14-MetCAT Sc: 74.60

Phe tRNAs

>>>.>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<.<<<.... GGCTCGGTAGCTCAGTTGGTAGAGCAATGGATTGAAGCTCCATGT...........GtCGGCGGTTCGATTCCGTCTCGCGCCA... chr.trna26-PheGAA Sc: 75.06 GGCTCGGTAGCTCAGTTGGTAGAGCAATGGATTGAAGCTCCATGT...........GtCGGCGGTTCGATTCCGTCTCGCGCCA... chr.trna15-PheGAA Sc: 75.06

Pro tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... CGGGAAGTAGCTCAGCTtGGTAGAGCACTTGGTTTGGGACCAAGGG...........GtCGCAGGTTCGAATCCTGTCTTCCCGA... chr.trna42-ProTGG Sc: 86.85 CGGGAAGTAGCTCAGCTtGGTAGAGCACTTGGTTTGGGACCAAGGG...........GtCGCAGGTTCGAATCCTGTCTTCCCGA... chr.trna10-ProTGG Sc: 86.85

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>>............<<<<.>>>>>.......<<<<<...>>>..........<<<....>>>>>.......<<<<<..<<<<<<<.... GGAGAGGTCGCATAGA..GGCcgA.GTGCGCACGCTTGGAAAGCGTGTAGTCC..TTAAc...GGGGCtCGGGGGTTCGAATCCCCT..CCTCTCCT... chr.trna63-SerGGA Sc: 53.70 >>>>>>>..>>>..............<<<.>>>>>.......<<<<<..>.>>.>......<.<<.<...>>>>>.......<<<<<..<<<<<<<.... GGAGGATTACCCAAGTCcGGCtgA.AGGGAACGGTCTTGAAAACCGTC.AGGCGTGTAA..AAGCGTG.CGTGGGTTCGAATCCCAC..ATCCTCCT... chr.trna24-SerTGA Sc: 61.73 GGAGGATTACCCAAGTCcGGCtgA.AGGGAACGGTCTTGAAAACCGTC.AGGCGTGTAA..AAGCGTG.CGTGGGTTCGAATCCCAC..ATCCTCCT... chr.trna13-SerTGA Sc: 61.73 >>>>>>>..>>>..............<<<.>>>>>.......<<<<<...>>>>>......<<<<<....>>>>>.......<<<<<..<<<<<<<.... GGAGAATTACTCAAGA..GGCtgA.AGAGGACGGTTTGCTAAATCGTTAGGTCGGGTAA..CTGACG..CGGGGGTTCGAATCCCCC..ATTCTCCG... chr.trna18-SerGCT Sc: 57.63

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCCGCTATAGTTAAAT.GGTA.TAATAGAGCAATGGTAATGCTCC............GtTCCGAGTTCAATTCTCGG.TGGTGGCA... chr.trna64-ThrGGT Sc: 50.60 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCCGGCTTAGCTCAGTTGGTA.GAGCATCTGATTTGTAATCAGAGG...........GtCGCGTGTTCAAGTCATGT.AGCCGGCA... chr.trna6-ThrTGT Sc: 83.52 GCCGGCTTAGCTCAGTTGGTA.GAGCATCTGATTTGTAATCAGAGG...........GtCGCGTGTTCAAGTCATGT.AGCCGGCA... chr.trna50-ThrTGT Sc: 83.52 GCCGGCTTAGCTCAGTTGGTA.GAGCATCTGATTTGTAATCAGAGG...........GtCGCGTGTTCAAGTCATGT.AGCCGGCA... chr.trna38-ThrTGT Sc: 83.52

Trp tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... ACGGGCATAGTTTAAAGGTA.GAACTAAGGTCTCCAAAACCTTCA...........GTGTGGGTTCAATTCCTACTGCCCGTG... chr.trna28-TrpCCA Sc: 53.01

Tyr tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>>.........<<<...>>>>>.......<<<<<.<<<<<<<.... GGAGAGATAGCGAAGAGGCtaA.ACGCGGCGGACTGTAAATCCGCTCCTT.......CGGGTtCGGGGGTTCGAATCCCTC.TCTCTCCA... chr.trna52-TyrGTA Sc: 66.36 GGAAGGGTAGCGAAGAGGCtaA.ACGCGGCGGACTGTAAATCCGCTCCTT.......CGGGTtCGGGGGTTCGAATCCCTC.CCCTTCCA... chr.trna27-TyrGTA Sc: 65.00

Val tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGAGTTTAGCTCAGCTGGGAGAGCATCTGCCTTACAAGCAGAGG...........GtCAGCGGTTCGATCCCGTTAACTCCCA... chr.trna46-ValTAC Sc: 84.84 GGGAGTTTAGCTCAGCTGGGAGAGCATCTGCCTTACAAGCAGAGG...........GtCAGCGGTTCGATCCCGTTAACTCCCA... chr.trna34-ValTAC Sc: 84.84 GGGAGTTTAGCTCAGCTGGGAGAGCATCTGCCTTACAAGCAGAGG...........GtCAGCGGTTCGATCCCGTTAACTCCCA... chr.trna20-ValTAC Sc: 84.84 GGGAGTTTAGCTCAGCTGGGAGAGCATCTGCCTTACAAGCAGAGG...........GtCAGCGGTTCGATCCCGTTAACTCCCA... chr.trna2-ValTAC Sc: 84.84

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.