GtRNAdb

tRNAscan-SE Analysis of Haloarcula marismortui ATCC 43049

>> 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

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCTCGTAGATCAGGGGTA.GATCACTCCCTTGGCATGGGAGAG...........GcCCCGGGTTCAAATCCCGGCGAGTCCA... chrI.trna40-AlaGGC Sc: 66.41 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCTCGTAGATCAGTGGCA.GATCGCTTCCTTCGCAAGGAAGAG...........GcCCCGGGTTCAAATCCCGGCGAGTCCA... chrI.trna33-AlaCGC Sc: 76.83 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCATAGCTCAGCGGGA.GAGCGCCGCCTTTGCAAGGCGGAG...........GcCCTGGGTTCAAATCCCAGTGGGTCCA... chrI.trna23-AlaTGC Sc: 84.58

Arg tRNAs

>>>>>>>..>>>..............<<<.>>>>>.....................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GTCCGGATAGGGTAGT..GGActA.TCCTCTTGGCTTGCGG..............................AGCCAGGG...........A.CCGGAGTTCAAATCTCCGTCCGGACG... chrI.trna14-ArgGCG Sc: 51.81 >>>>>>>..>>>>............<<<<..>>>>.....................................<<<<.................>>>>>.......<<<<<<<<<<<<.... GGGCGGCTAGTTCAGC..GGAc.A.GAACGCCTGGTTCCGG..............................ACCAGATG...........GtCGGGGGTTCAAATCCCTCGCCGCCCG... chrI.trna36-ArgCCG Sc: 68.06 >>>>>>>..>>>>............<<<<..>>>>.....................................<<<<.................>>>>>.......<<<<<<<<<<<<.... GGGCGCTTAGCTCAGCTtGGAc.A.GAGTGCTTGGCTTCGG..............................ACCAAACC...........GtCGGGGGTTCAAATCCCTCAGCGCCCG... chrI.trna9-ArgTCG Sc: 68.70 >>>>>>>..>>>>............<<<<.>>>>>.....................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGTGTGGCCTAGT..GGAccA.GGGCGAGGGGTTCCTA..............................ACCCCTAG...........AaCGCGGGTTCGAATCCCGCCACGCCCG... chrI.trna4-ArgCCT Sc: 70.57 >>>>>>>..>>>>............<<<<.>>>>>.....................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCACGTAGCTCAGTCcGGAt.A.GAGCGTCGGACTTCTAtctccgctggcgctgccatcgggggaagacATCCGACG...........GtCGTGGGTTCGAATCCCACCGTGCCCG... chrI.trna20-ArgTCT Sc: 72.07

Asn tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGTTGGTAGAGCACCTGGTTGTTACCCAGGTT...........GtCCCAGGTTCGAGCCCTGGCGGTGGCG... chrI.trna34-AsnGTT Sc: 64.40

Asp tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCCGGATGGTGTAGTGGCccA.TCATACGACCCTGTCACGGTCGTG...........ACGCGGGTTCAAATCCCGCTCCGGGCG... chrI.trna18-AspGTC Sc: 66.50 GCCCGGATGGTGTAGTGGCccA.TCATACGACCCTGTCACGGTCGTG...........ACGCGGGTTCAAATCCCGCTCCGGGCG... chrI.trna17-AspGTC Sc: 66.50

Cys tRNAs

>>>>>>>..>>...............<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCAAGGTGGCAGAGTCtGGCctAACGCAGCGGCCTGCAGAGCCGCCC...........AtCGCCGGTTCAAATCCGGCCCTTGGCT... chrI.trna24-CysGCA Sc: 68.03

Gln tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... AGTCCATTGGGGTAGTGGCcaA.TCCTGAAGCCTTCTGGGGGCTTCG...........ACCCTGGTTCGAATCCAGGATGGACTA... chrI.trna30-GlnCTG Sc: 48.78 >>>>>>>..>>>............<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... AGTCCCGTGGTGTAGTGGCcaA.TCATAAGGGCCTTTGGAGCCCTTG...........ACGGCGGTTCGAATCCGCCCGGGACTA... chrI.trna38-GlnTTG Sc: 62.86

Glu tRNAs

>>>>>>>..>>>.............<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCTCCGTTGGTGTAGTCcGGCcaATCATATCACCCTCTCACGGTGATG...........ACTAGGGTTCAAATCCCTGACGGAGCA... chrI.trna45-GluCTC Sc: 62.56 GCTCCGTTGGTGTAGCTcGGCcaACCATCTCGGCATCTCACGTCGAGG...........ACCGAGGTTCAAATCCTCGACGGAGCA... plasmid_pNG600.trna50-GluCTC Sc: 48.52 >>>>>>>..>>>.............<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCTCGGTTGGTGTAGTCcGGCcaATCATCTTGGCCTTTCGAGCCGAGG...........ACCAGGGTTCAAATCCCTGACCGAGCA... chrI.trna42-GluTTC Sc: 62.47

Gly tRNAs

.....>>>>>>>.......................>>>...........<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... .....GCGCTGGT.....................AGTGTAGTTGGTA.TCACGTGACCTTGCCATGGTCACA...........ACCTGGGTTCAAATCCCAGCCAGCGCA... chrI.trna12-GlyGCC Sc: 61.90 .....>>.>>>>.......................>>>>.........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<.<<.... cgcgaGCCTCGGCgcgactgcaacgagcgccggtGGTCCAGT.GGTA.GGACATTGCCTTCCCAAGGCAATA...........GCCCGGGTTCAATTCCCGGCCGGCGCA... chrI.trna19-GlyCCC Sc: 71.01 .....>>>>>>>.......................>>>>.........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... .....GCGGCGGT.....................GGTCTAGT.GGTA.GGACCTGAGCCTTCCAAGCTCATG...........GCCCGGGTTCAAATCCCGGTCGCCGCA... chrI.trna47-GlyTCC Sc: 71.18

His tRNAs

>>>>>>>..>>>..........<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... TCCGGGTTGGGGTAGTGGTA.TCCTTCAGCCTTGTGGTGGCTGAG...........ACGTGGGTTCAATTCCCGCACCCGGAC... chrI.trna21-HisGTG Sc: 46.57

Ile tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCAATAGCTCAATCaGGTTGAGCGCTCGGCTGATAACCGGGAG...........GtTCGCGGTTCAAATCCGCGTTGGCCCA... chrI.trna26-IleGAT Sc: 62.60

Leu tRNAs

>>>>>>>..>>>.............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGTGGGTAGCCAAGCCaGGCcaACGGCGCAGCGTTGAGGGCGCTGTCCCGTAG....GGGTcCGCCGGTTCGAATCCGGT.CCCACGCA... chrI.trna44-LeuGAG Sc: 64.04 >>>>>>>..>>>.............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCAGGGATAGCCAAGTTtGGCcaACGGCGCAGCGTTCAGGGCGCTGTCCCGTAG....GGGTcCGCAGGTTCAAATCCTGC.TCCCTGCA... chrI.trna2-LeuCAG Sc: 63.38 >>>>>>>..>>>.............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGCGGGTTGCCGAGCCaGGCcaAAGGCGTAGCGCTTAGGACGCTATCCCGTAG....GGGTcCGCCGGTTCGAATCCGGT.CCCGCGCA... chrI.trna7-LeuTAG Sc: 69.45 >>>>>>>..>>>.............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGAGGGTAGCCAAGCCaGGAa.ACGGCGGCGGACTCAAGATCCGCTCCCGTAG....GGGTcCAAGGGTTCAAATCCCTT.CCCTCGCA... chrI.trna43-LeuCAA Sc: 71.31 >>>>>>>..>>>.............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGAGGGTAGCCGAGCTtGGCcaAAGGCGGTGGGCTTAAGACCCGCTCCCGTAG....GGGTcCGTGGGTTCGAATCCCAT.CCCTCGCA... chrI.trna28-LeuTAA Sc: 70.86

Lys tRNAs

>>>>>>>..>>>>..............<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCGGTAGCTC..AGTCtGGCA...GAGCGACGGCCTCTTAAGCCGTCG...........GtCGAGGGTTCAAATCCCTTCCGGCCCG... chrI.trna5-LysCTT Sc: 87.54 >>>>>>>..>>>>..............<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCGGTAGCTC..AGTTaGGCA...GAGCGTCTGGCTTTTAACCAGATG...........GtCGGGGGTTCAACTCCCTCCCGGCCCG... chrI.trna29-LysTTT Sc: 79.28 GGGCTCGGGGCCTat.GA..GGCA..cAGGCGTGGGACTTTTAATCCCGAG...........AcAGAGGGTTCGAATCCCTCCGAGCCCG... chrII.trna3-LysTTT Sc: 46.18

Met tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>..............................................................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCTTAGCTTAGTCtGGTtAAAGCGATCGGCTCATA.......................................................................ACCGATTG...........AgCGCTGGTTCAAATCCGGCAGGGCCCA... chrI.trna35-MetCAT Sc: 75.80 >>>>>>>..>>>............<<<.>>>>>..............................................................................<<<<<................>>>>>.......<<<<<<<<<<<<.... AGCGGGATGGGATAGCCaGGAgATTCCGGCGGGCTCATA.......................................................................ACCCGCAG...........AtCGGTAGTTCAAATCTACCTCCCGCTA... chrI.trna27-MetCAT Sc: 60.33 GCCCGGGTGGCTTAGCT.GGAcATAGCGCCGCACTCATAgggtctttcgactcatgcggcagtgcacccgtcatgaccccggggcgctcgtcacgccccagacctgggccATGCGGAG...........AtCGAGGGTTCGGAGCCCTCCCCGGGCA... chrI.trna13-MetCAT Sc: 52.86

Phe tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCTTAGCTCAGACtGGGAGAGCACTCGACTGAAGATCGAGCT...........GtCCCCGGTTCAAATCCGGGAGGCGGCA... chrI.trna16-PheGAA Sc: 75.70

Pro tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GGGACCGTGGGGTAGC..GGTA.TCCTCGGCGCATGGGGTGCGTCGG...........A.CCTGAGTTCGAATCTCGG.CGGTCCCA... chrI.trna46-ProGGG Sc: 46.47 >>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GGGCCGGTGGGGTAGCCtGGTA.TCCTTCGGCCTTCGGGTGGCCGTA...........A.CCGCGATTCGAATTCGCG.CCGGCCCA... chrI.trna25-ProCGG Sc: 61.11 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GGGATCGTGGGGTAGCTtGGTA.ACCTTCGGGCCTTGGGTGCCCGC............GcCCCTAGTTCAAATCTGGG.CGATCCCA... chrI.trna22-ProTGG Sc: 58.03

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>..............<<<.>>>>>.......<<<<<..>>>>............<<<<...>>>>>.......<<<<<.<<<<<<<.... GCCAGAATGGCCGAATCtGGT..A.AGGCGCACGCCTGGAAAGCGTGTTCCCAT..........TTGGGAtTCTGGGTTCAAATCCCAG.TTCTGGCG... chrI.trna31-SerGGA Sc: 60.46 >>>>>>>..>>>>............<<<<.>>>>>.......<<<<<..>>>..............<<<...>>>>>.......<<<<<.<<<<<<<.... GCCGAGGTAGCCTAGCCtGGCc.A.AGGCGGTTGCTTCGAGAGCAACTGTCCTC..........ACGGACtCAGGAGTTCAAATCTCCT.CCTCGGCG... chrI.trna39-SerCGA Sc: 62.46 >>>>>>>..>>>>............<<<<.>>>>>.......<<<<<..>>>..............<<<...>>>>>.......<<<<<.<<<<<<<.... GGTGGGATGGCAGAGC..GGCctA.TTGCGCCTGCCTTGAAAGCAGGTATCCTC..........ACGGATtCCTGGGTTCAAATCCCAG.TCCCACCG... chrI.trna48-SerTGA Sc: 60.17 >>>>>>>..>>>..............<<<.>>>>>.......<<<<<..>>>..............<<<...>>>>>.......<<<<<.<<<<<<<.... GTCGTGGTAGCCAAGCCtGGCccA.AGGCGCAGGGTTGCTAACTCTGT.GGC..GTACa.......GCCT.CCGGGGTTCGAATCCCCG.CCACGACG... chrI.trna1-SerGCT Sc: 66.48

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>...............<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCTGGGTAGCTT..AGC..GGT..A..AAGCGCGTCCTTGGTAAGGACGAG...........AcCCCGGATTCAAATTCCGGCCTAGGCT... chrI.trna32-ThrGGT Sc: 65.68 >>>>>>>..>>>>...............<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGGTGTAGCTC..AGACtGGC..A..GAGCGAATCCTTCGTAAGGATTAG...........GcCGAGGGTTCAAATCCCTCCACCGGCT... chrI.trna41-ThrCGT Sc: 75.07 >>>>>>>..>>>.................<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCAGGGGAGCTTgg.GT..GGTccA...AGCACTCGACTTGTAATCGAGAG...........TtCGTGGGTTCAAATCCCACCCCTGGCT... chrI.trna49-ThrTGT Sc: 54.10

Trp tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>..................................................................................................................<<<<<........................>>>.>>.......<<<<<<<<<<<<.... GGGGTCGTGGCCTAGTCcGGGA.AGGCGGCTGACTCCAGaggccacgcgcctgggacgacactccaagggctgatatactgagcggccggctgatcaccggttcgcgacgatgaccctctggagttccgaggcgcaggacggagatATCAGCCG...................AtCGGG.GGTTCAAATCCCTCCGACCCCA... chrI.trna6-TrpCCA Sc: 56.36 >>>>>>>..>>>>..........<<<<.>>>>>..................................................................................................................<<<<<...>>>...........<<<....>>>.>>.......<<<<<<<<<<<<.... GGAAGGGTGGCTCAGT..GGTA.GAGCGCTACCAACCAAcatgccagaatcggt............................................................................................TGGTGGTTACCCCGCAA.....AGGGCTcCGCGtGGTTCGACTCCCGCCCCTTCCA... chrI.trna8-TrpCCA Sc: 23.36

Tyr tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... CCGCCCTTAGCTCAGACtGGTAGAGCAGTCGACTGTAGATCGACTT...........GtCCCCCGTTCAAATCGGGGAGGGCGGA... chrI.trna37-TyrGTA Sc: 65.59

Val tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGTTCGTGGTCTAGGTcGGTtATGACACCTCCTTGACATGGAGGAG...........GcCGGCGGTTCAAATCCGCCCGAACCCA... chrI.trna11-ValGAC Sc: 64.73 >>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGTTGGTGATCTAGTTcGGTtATGATACCTCCTTCACACGGAGGAA...........GtCGGCGGTTCGAATCCGCCCCAACCCA... chrI.trna10-ValCAC Sc: 63.04 >>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGTCCGTGGTCTAGTT.GGTtATGACGTGGCCTTTACAAGGCCGAG...........GcCGGTGGTTCGAATCCGCCCGGACCCA... chrI.trna15-ValTAC Sc: 71.31

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.