GtRNAdb

tRNAscan-SE Analysis of Metallosphaera sedula DSM 5348

>> 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

>>>>>>>..>>>>.........<<<<.>>>>>......................<<<<<.................>>>>>.......<<<<<<<<<<<<.... GGGCCGGTAGCTCAGCCtGGAAGAGTGCGCGGTTGGCA...............TCCGCGAG...........Gt.CCCGGGTTCAAATCCCGGCCGGTCCA... chr.trna26-AlaGGC Sc: 84.19 >>>>>>>..>>>>.........<<<<.>>>>>......................<<<<<.................>>>>>.......<<<<<<<<<<<<.... GGGCCGGTAGCTCAGCCtGGAAGAGTGCCTGGTTCGCA...............CCCAGGAG...........Gt.CCCGGGTTCAAATCCCGGCCGGTCCA... chr.trna12-AlaCGC Sc: 89.12 >>>>>>>..>>>>.........<<<<.>>>>>......................<<<<<.................>>>>>.......<<<<<<<<<<<<.... GGGCCGGTAGCTCAGCCtGGAAGAGCGCTCGGCTTGCAacccacgggcaggatACCGAGAG...........GtcCCCGGGTTCAAATCCCGGCCGGTCCA... chr.trna11-AlaTGC Sc: 80.26

Arg tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCCGTGGCTCAGCCaGGAcAGAGCGAAGGCCTGCGG................AGCCTTAG...........GtCCCGGGTTCAAATCCCGGCGGGTCCG... chr.trna18-ArgGCG Sc: 84.66 >>>>>>>..>>>>..........<<<<.>>>>>.......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCCGTAGCTCAGCCaGGAtAGAGCGTAGGCCTCCGG................AGCCTAAG...........GtCCCGGGTCCGAATCCCGGCGGGTCCG... chr.trna27-ArgCCG Sc: 78.81 >>>>>>>..>>>>..........<<<<.>>>>>.......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCCGTAGCTCAGCCaGGAtAGAGCGCAGGCCTTCGG................AGCCTGTG...........GtCCCGGGTCCGAATCCCGGCGGGTCCG... chr.trna16-ArgTCG Sc: 81.81 >>>>>>>..>>>>..........<<<<..>>>>.......................<<<<.................>>>>>.......<<<<<<<<<<<<.... GGACCCGTAGCTCAGCCaGGAtAGAGCGCCGGCCTCCTAagcggaggcaagagtgAGCCGAGG...........GtCGGGGGTCCGAATCCCCCCGGGTCCG... chr.trna40-ArgCCT Sc: 67.20 >>>>>>>..>>>>..........<<<<..>>>>.......................<<<<.................>>>>>.......<<<<<<<<<<<<.... GGACCCGTAGCTCAGCCaGGAtAGAGCGCCGGCCTTCTAacaggccgaaggg...AGCCGAGG...........GtCGGGGGTCCGAATCCCCCCGGGTCCG... chr.trna36-ArgTCT Sc: 67.13

Asn tRNAs

>>>>>>>..>>>>........<<<<.>>>>>........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCGGTAGCTCAGCTGGCAGAGCGCTCGGCTGTTAacttctagttgacagagACCGAGCG...........GtCGACGGTTCGAGTCCGTCCCGCGGCG... chr.trna34-AsnGTT Sc: 68.59

Asp tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCGCAGTAGTCTAGCCcGGTctAGGATGGGGGCCTGTCGAGCCCCTG...........ACCCGGGTTCAAATCCCGGCTGCGGCG... chr.trna48-AspGTC Sc: 79.71

Cys tRNAs

>>>>>>>..>>>............<<<.>.................................................<..................>>>>>.......<<<<<<<<<<<<.... GCCGGGGTGGCCGAGCGGTctA.AGGCGGCACTACCAtaggtagcgctaggggctgcagtgggtttcaggttggaAACC..CGTTAT.......TtCGCGGGTTCAAATCCCGCCCCCGGCT... chr.trna42-CysGCA Sc: 63.41

Gln tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... AGCCGGGTAGTCTAGCGGCcaA.GGATCCAGGGCTCTGGCCCCTGGG...........ACCCCGGTTCGAATCCGGGCCCGGCTA... chr.trna13-GlnCTG Sc: 63.97 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... AGCCGGGTAGTCTAGCGGCcaA.GGATCCAGGGCTTTGGCCCCTGGG...........ACCAGGGTTCGAATCCCTGCCCGGCTA... chr.trna4-GlnTTG Sc: 64.58

Glu tRNAs

>>>>>>>..>>>>..........................<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCGCGATAGTATAGCCcGGTcAagccgtggtgccgagaGTATGCAGGCCTCTCAAGCCTGTG...........GCCCGGGTTCAAATCCCGGTCGCGGCA... chr.trna9-GluCTC Sc: 81.83 >>>>>>>..>>>>..........................<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCGCGGTAGTATAGCCcGGCcAtgctctgcgccgaga.GTATGCGGGCCTTTCGAGCCCGTG...........ACCCGGGTTCAAATCCCGGCCGCGGCA... chr.trna20-GluTTC Sc: 82.14

Gly tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGCCGTAGTCTAGCCtGGAttAGGACGCCTGCCTGCCACGCAGGAG...........GtCCCGGGTTCAAATCCCGGCGGTCGCA... chr.trna31-GlyGCC Sc: 83.53 >>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGCCGTAGTCCAGCCtGGTt.AGGACGCTGGCCTCCCAAGCCAGAG...........AtCCCGGGTTCAAATCCCGGCGGTCGCA... chr.trna45-GlyCCC Sc: 90.22 >>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGCCGTAGTCTAGCCtGGTt.AGGACGCTGGCCTTCCAAGCCAGAA...........GtCCCGGGTTCAAATCCCGGCGGTCGCACCA chr.trna17-GlyTCC Sc: 89.15

His tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCTCAGGTAGCTCAGCTcGGTtAGAGCGCTGGGCTGTGGACCCAGTG...........GtCCCGGGTTCAAATCCCGGCCTGAGCC... chr.trna44-HisGTG Sc: 82.78

Ile tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>....................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTTAGCAtGGTtAGAGCGCCCGGCTGATAacttctgtcagagACCGGGAG...........GtCGAGGGTTCAAATCCCTCCGGGCCCA... chr.trna37-IleGAT Sc: 80.42

Leu tRNAs

>>>>>>>..>>>.............<<<.>>>>>......................<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCTaGGCcaAAGGGGGTGGACTGAGG...............CTCCACTGGAGTAG....TCCTgCGCGGGTTCAAATCCCGC.CCCCCGCA... chr.trna8-LeuGAG Sc: 70.55 >>>>>>>..>>>.............<<<.>>>>>......................<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCTaGGTcaAAGGGGGTAGGCTCAGGaccattaggtgagacCCCTACTGGAGTAG....TCCTgCGCGGGTTCAAATCCCGC.CCCCCGCA... chr.trna24-LeuCAG Sc: 59.83 >>>>>>>..>>>.............<<<.>>>>>......................<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCTaGGCcaAAGGGGGTAGGCTTAGG...............CCCTACTGGAGTAG....TCCTgCGCGGGTTCAAATCCCGC.CCCCCGCA... chr.trna35-LeuTAG Sc: 67.75 >>>>>>>..>>>.............<<<.>>>>>......................<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGATGCCCGAGCT.GGTccAAGGGGGCGGACTCAAGaccgccagggtg...ATCCGCTGGCGCAG....GCCAtCCGGGGTTCAAATCCCCG.TCCCCGCA... chr.trna39-LeuCAA Sc: 66.61 >>>>>>>..>>>.............<<<.>>>>>......................<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCCtGGTcaAAGGGGGCGGACTTAAGatcacataggtg...ATCCGCTGGAGCAG....TCCTgCGCGGGTCCAAATCCCGC.CCCCCGCA... chr.trna47-LeuTAA Sc: 64.41

Lys tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCTCGTAGCTTAGCCaGGTAGAGCGACGGGCTCTTAaccacaacgggaggtACCCGTAG...........GtCCCGGGTTCGAATCCCGGCGAGCCCGCCA chr.trna5-LysCTT Sc: 81.87 >>>>>>>..>>>>.........<<<<.>>>>>......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTCAGCTaGGTAGAGCGGCGGGCTTTTA...............ACCCGTAG...........GcCCCGGGTTCGAATCCCGGCGGGCCCG... chr.trna6-LysTTT Sc: 87.12

Met tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>...............................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTCAGCTaGGT.AGAGCGCGCGGCTCATA........................ACCGCGTG...........GtCGAGGGTTCAAATCCCTCCGGGCCCA... chr.trna29-MetCAT Sc: 87.94 GCCGCCGTAGCTCAGCCtGGCcAGAGCGCCGGACTCATAcggatgctgggtc...........ATCCGGTC...........GtCCGGGGTTCAAATCCCCGCGGCGGCACCA chr.trna14-MetCAT Sc: 85.84 AGCGGCGTAGGCCAGCCtGGT.AGGCCGCAGGGCTCATAtatgggtgtaaaacccgttgagaaACCCTGAG...........GtCCCTGGTTCAAGTCCAGGCGCCGCTA... chr.trna43-MetCAT Sc: 72.46

Phe tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.....................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGCCcGGGAGAGCACCCGGCTGAAGacttcggtatagagACCGGGTT...........GtCCGGGGTTCAAGTCCCCGCGGCGGCA... chr.trna46-PheGAA Sc: 73.33

Pro tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>............................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCGTAGTCTAGCTtGGAttAGGATGCCAGCCTGGGGataactccctaaccaccagagCGCTGGTG...........GtCCCGGGTTCAAATCCCGGCGGCCCCA... chr.trna38-ProGGG Sc: 71.44 >>>>>>>..>>>>...........<<<<.>>>>>............................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGTCTAGCTtGGAttAGGATGCGACGTTCGGG.....................TCGTCGTG...........AtCCCGGGTTCAAATCCCGGCGGGCCCA... chr.trna41-ProCGG Sc: 73.73 >>>>>>>..>>>>...........<<<<.>>>>>............................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCGTCGTCTAGTTtGGTccAGGACGCCAGGCTTGGG.....................CCCTGGTA...........AtCGGGGGTTCAAATCCCCTCGGCCCCA... chr.trna33-ProTGG Sc: 76.24

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>..............<<<.>>>>>...............................<<<<<..>>>................<<<...>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTGCCCGAGC..GGAccA.AGGGGCTGGCCTGGAGaatgttccggct............AGCCAGTAGGG....GCAA........CCCTaCGCGGGTTCAAATCCCGC.CCCCGGCG... chr.trna2-SerGGA Sc: 61.24 >>>>>>>..>>>..............<<<.>>>>>...............................<<<<<..>>>>>............<<<<<...>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTGCCCGAGC..GGAccA.AGGGGGTAGGCTCGAGacctttccagcgttaaagcgtgcgACCTACT.GTCTCTC.........CGAGACA.CGCGGGTTCAAATCCCGC.CCCCGGCG... chr.trna23-SerCGA Sc: 49.02 >>>>>>>..>>>..............<<<.>>>>>...............................<<<<<..>>>>..............<<<<...>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTGCCCGAGC..GGAccA.AGGGGCTGGCCTTGAGagcttcctggtt............AGCCAGTAGGGAA............CTCCCTgCGCGGGTTCAAATCCCGC.CCCCGGCG... chr.trna3-SerTGA Sc: 60.36 >>>>>>>..>>>>............<<<<.>>>>>...............................<<<<<..>>>................<<<...>>>>>.......<<<<<.<<<<<<<.... GCCGGGATCGCCTAGCCtGGTt.A.GGGCGGCGGCCTGCTAattagcgtgggc............AGCCGTTGGGG....GAAAc.......CCCG.CGTGGGTTCAAATCCCAC.TCCCGGCG... chr.trna19-SerGCT Sc: 64.56

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.....................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCGGTAGCTCAGCCtGGCtGGAGCGCTGCCCTGGTAaccaacccgggc..AGGCAGAG...........GcCCCGGGTTCAAATCCCGGCCGCGGCT... chr.trna10-ThrGGT Sc: 76.85 >>>>>>>..>>>>..........<<<<.>>>>>.....................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCTGTAGCTCAGCT.GGT.AGAGCGCCGGCCTCGTAtccctggagagat.AGCCGGTG...........GtCGCGGGTTCAAATCCCGCCGGCGGCT... chr.trna1-ThrCGT Sc: 80.58 >>>>>>>..>>>>..........<<<<.>>>>>.....................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCTGTAGCTCAGCCtGGCcAGAGCGCCGGCCTTGTAaggtttcccaagccAGCCGGCG...........GtCGCGGGTTCAAATCCCGCCAGCGGCT... chr.trna15-ThrTGT Sc: 83.12

Trp tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>................................................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCATAGCTCAGCCaGGTtAGAGTGCTGGGCTCCAGatatcagcattgggtctgtcgacccgaaaggggatgaaatatatctggaatggagagACCCAGTG...........GtCCGGGGTCCGAATCCCCGTGGGCCCA... chr.trna32-TrpCCA Sc: 71.03

Tyr tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>....................<<<<<................>>>>>.......<<<<<<<<<<<<.... CCCACCGTAGCTCAGCCcGGTtcAGAGCGCCCGGCTGTAGataaagggcagttACCGGGTG...........GtCCGGGGTTCAAGTCCCCGCGGTGGGA... chr.trna22-TyrGTA Sc: 73.06

Val tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTCGTCTAGCCtGGTtAGGATGCCGCTCTGACACAGCGGAG...........GtCCTGGGTTCAAATCCCAGCGGGCCCA... chr.trna30-ValGAC Sc: 81.98 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCCGTCGTCTAGCCtGGTtAGGACGCAGCCCTCACACGGCTGAG...........GtCGAGGGTTCAAATCCCTCCGGGTCCA... chr.trna7-ValCAC Sc: 82.00 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTCGTCTAGCCtGGTtAGGACGCTGGCCTTACAAGCCAGAG...........GtCTTGGGTTCAAATCCCAACGGGCCCA... chr.trna25-ValTAC Sc: 87.26

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.