Genomic tRNA Database: Staphylothermus marinus F1

tRNAscan-SE Analysis of Staphylothermus marinus F1

>> Main Overview

>> tRNAs by Isotype

>> tRNAs by Locus

>> Secondary Structures

>> tRNA Alignments

>> Run Options/Stats

>> Analysis Notes

>> UCSC Genome Browser

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



>>>>>>>..>>>>.........<<<<.>>>>>...............................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCGGTAGCTCAGCCtGGAAGAGCGCTCGGTTGGCA........................................TCCGAGAG...........GtCCCGGGTTCAAATCCCGGCCGGTCCACCA chr.trna13-AlaGGC Sc: 87.98  

>>>>>>>..>>>>.........<<<<.>>>>>...............................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCGGTAGCTCAGCCtGGAAGAGCGCCGCCCTCGCAtataatgctaccgaggtcggggg.................AGGCGGAG...........GtCCCGGGTTCAAATCCCGGCCGGTCCACCA chr.trna32-AlaCGC Sc: 88.69  

>>>>>>>..>>>>.........<<<<.>>>>>...............................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCGGTAGCTCAGCCtGGAAGAGCGCCGCCCTTGCAcgacccctataatagggggtctggcaccggggtcggagagAGGCGGAG...........GtCCCGGGTTCAAATCCCGGCCGGTCCACCA chr.trna18-AlaTGC Sc: 87.14  



Arg tRNAs



>>>>>>>..>>>>...........<<<<.>>>>>.............................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTAGCCTAGCCtGGAt.AGGGCGCCGGCCTGCGGagaatagtagggttcgtggcc.AGCCGGAG...........GcCCCGGGTTCAAATCCCGGCGGGCCCG... chr.trna38-ArgGCG Sc: 82.47  

>>>>>>>..>>>>...........<<<<.>>>>>.............................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTAGCCTAGCCaGGAa.AGGGCGCCGGCCTCCGG......................AGCCGGAG...........AtCCCGGGTTCAAATCCCGGCGGGCCCG... chr.trna1-ArgCCG Sc: 89.38  

>>>>>>>..>>>>...........<<<<.>>>>>.............................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTAGCCTAGCCcGGAtcAGGGCGCCGGCCTTCGG......................AGCCGGAG...........AcCCCGGGTTCAAATCCCGGCGGGCCCG... chr.trna5-ArgTCG Sc: 88.92  

>>>>>>>..>>>>...........<<<<.>>>>>.............................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTAGCCTAGCCaGGAt.AGGGCGCCGGCCTCCTAagcacagtgttttagcagggccAGCCGGAG...........AcCCGGGGTTCGAATCCCCGCGGGCCCG... chr.trna36-ArgCCT Sc: 77.77  

>>>>>>>..>>>>...........<<<<.>>>>>.............................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTGGCCTAGCCtGGAt.AGGGCGCCGGCCTTCTA......................AGCCGGAG...........AcCCGGGGTTCGAATCCCCGCGGGCCCG... chr.trna23-ArgTCT Sc: 88.76  



Asn tRNAs



>>>>>>>..>>>>.........<<<<.>>>>>......................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GCCGGGGTAGCTCAGCCtGGTAGAGCGCCGGGCTGTTAacccacgggttcgaagaatagcctggcagacACCCGGTG...........GtCCGGGGTTCAAATCCCCGCCCCGGCG... chr.trna16-AsnGTT Sc: 82.64  



Asp tRNAs



>>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<....
GCCCCCGTAGTATAGCCcGGCctAGTATGCGGGCCTGTCGAGCCCGTG...........ACCCGGGTTCAAATCCCGGCGGGGGCG... chr.trna8-AspGTC Sc: 80.23  



Cys tRNAs



>>>>>>>..>>>............<<<.>>>>>.....................................................<<<<<.................>>>>>.......<<<<<<<<<<<<....
GCCGGGGTGGCCGAGCGGTctA.AGGCGGCGGGCTGCAGggccccataattcacatggactttaccctgtagggggttcatggaaACCCGCTTt...........AcCGCGGGTTCGAATCCCGCCCCCGGCTCCA chr.trna29-CysGCA Sc: 59.36  



Gln tRNAs


>>>>>>>..>>>>..........<<<<.>>>>>.................................<<<<<...............>>>>>.......<<<<<<<<<<<<....
AGCCGGGTCGTCTAGCGGCcaA.GGATGCGGGGCTCTGGcccagttgtaaatgctggggagaa..CCCCCGTG...........ACCGGGGTTCGAATCCCCGCCCGGCTACCA chr.trna26-GlnCTG Sc: 61.16  

>>>>>>>..>>>>..........<<<<.>>>>>.................................<<<<<...............>>>>>.......<<<<<<<<<<<<....
AGCCGGGTCGTCTAGCGGCcaA.GGATGCGGGGCTTTGGatcacccgctcaacgggtgaggagaaCCCCCGTG...........ACCGGGGTTCGAATCCCCGCCCGGCTACCA chr.trna11-GlnTTG Sc: 60.54  



Glu tRNAs


>>>>>>>..>>>>...........<<<<.>>>>>....................................<<<<<..>.>.........<.<..>>>>>.......<<<<<<<<<<<<....
GCCGCCGTAGTATAGCCcGGCcaAGTATGCGGGCCTCTCGagcccgtgtccacagggccaatacaagaaGGCCCGTGCGCG.......GGAGACCCGGGTTCAAATCCCGGCGGCGGCA... chr.trna22-GluCTC Sc: 59.67  

>>>>>>>..>>>>...........<<<<.>>>>>....................................<<<<<...................>>>>>.......<<<<<<<<<<<<....
GCCGCCGTAGTATAGCCcGGCcaAGTATGCGGGCCTTTCG.............................AGCCCGTG...............ACCCGGGTTCAAATCCCGGCGGCGGCA... chr.trna45-GluTTC Sc: 81.87  



Gly tRNAs



>>>>>>>..>>>>...........<<<<.>>>>>................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GCGGCGGTCGTCTAGCCtGGActAGGACGCCGGCCTGCCAtacgggttcgtataaccgtgtagaaCGCCGGAG...........AtCCCGGGTTCAAATCCCGGCCGCCGCACCA chr.trna6-GlyGCC Sc: 79.23  

>>>>>>>..>>>>...........<<<<.>>>>>................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GCGGCGGTCGTCTAGCCtGGActAGGACGCCGGCCCCCCA.........................AGCCGGAG...........AtCCCGGGTTCAAATCCCGGCCGCCGCACCA chr.trna35-GlyCCC Sc: 84.81  

>>>>>>>..>>>>...........<<<<.>>>>>................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GCGGCGGTCGTCTAGCCtGGActAGGACGCCGGCCCTCCA.........................AGCCGGAG...........AtCCCGGGTTCAAATCCCGGCCGCCGCA... chr.trna21-GlyTCC Sc: 83.75  



His tRNAs



>>>>>>>..>>>>........<<<<.>>>>>............................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GCCCGGGTAGCTCAGCCGGTAGAGCGCCGGGCTGTGGacaaacccccaatgataaaagaggggaaaagacagaaACCCGGAG...........GtCCCGGGTTCAAATCCCGGCCCGGGCC... chr.trna41-HisGTG Sc: 79.66  



Ile tRNAs



>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTAGCTCAGCCtGGTGGAGCGCCCGGCTGATAACCGGGAG...........GtCGGGGGTTCGAATCCCCCCGGGCCCA... chr.trna31-IleGAT Sc: 89.38  




Leu tRNAs



>>>>>>>..>>>.............<<<.>>>.>>..........................................<<<<<..>>>...........<<<...>>>>>.......<<<<<...<<<<<<<....
GCGGGGGTGCCCGAGCCtGGTcaAAGGGGCCG.GGTTGAGG...................................ACCCGGT.GGCGTAG.......GCCTgCGTGGGTTCAAATCCCAC...CCCCCGCACCA chr.trna10-LeuGAG Sc: 81.52  

>>>>>>>..>>>.............<<<.>>>.>>..........................................<<<<<..>>>...........<<<...>>>>>.......<<<<<...<<<<<<<....
GCGGGGGTGCCCGAGCAtGGTcaAAGGGGTCG.GGCTCAGG...................................ACCCGAT.GGCGTAG.......GCCTgCGTGGGTTCAAATCCCAC...CCCCCGCACCA chr.trna3-LeuCAG Sc: 77.67  

>>>>>>>..>>>.............<<<.>>>.>>..........................................<<<<<..>>>...........<<<...>>>>>.......<<<<<...<<<<<<<....
GCGGGGGTGCCCGAGCCtGGTcaAAGGGGTCG.GGCTTAGG...................................ACCCGAT.GGCGTAG.......GCCTgCGTGGGTTCAAATCCCAC...CCCCCGCACCA chr.trna43-LeuTAG Sc: 81.44  

>>>>>>>..>>>.............<<<.>>>.>>..........................................<<<<<..>>>...........<<<...>>>>>.......<<<<<...<<<<<<<....
GCGGGGGTGCCCGAGCCaGGTtaAAGGGGGCG.GACTCAAGacagggccaacatatagtggttcggcccaggggagATCCGCT.GGCGTAG.......GCCTgCGTGGGTTCAAATCCCAC...CCCCCGCACCA chr.trna42-LeuCAA Sc: 68.32  
>>>>>.........................>>.>>..........................................<<<<.......................>>>>>.......<<<<<.....<<<<<....
GGGCC........AGCC.GAT..A....GCCGaGGCTCTTA...................................ACCCGTAG.................GtCCCGGGTTCAAATCCCGG...CGGGCCCG... chr.trna33-LeuCAA Sc: 26.23  Pseudo

>>>>>>>..>>>.............<<<.>>>.>>..........................................<<<<<..>>>...........<<<...>>>>>.......<<<<<...<<<<<<<....
GCGGGGGTGCCCGAGCCtGGTcaAAGGGGGCG.GACTTAAGaccggcgggacaatatattaaccgccgaggggag.ATCCGCT.GGCGTAG.......GCCTgCGTGGGTTCAAATCCCAC...CCCCCGCACCA chr.trna15-LeuTAA Sc: 71.42  



Lys tRNAs



>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTAGCTCAGCCtGGTAGAGCGGCGGGCTTTTAACCCGTAG...........GtCCCGGGTTCAAATCCCGGCGGGCCCG... chr.trna12-LysTTT Sc: 92.08  



Met tRNAs


>>>>>>>..>>>>.........<<<<.>>>>>.............................................<<<<<................>>>>>........................................<<<<<<<<<<<<....
GGGCCCGTAGCTCAGCCaGGTAGAGCGCCGGGCTCATA......................................ACCCGGTG...........GtCGGGGGTTCGAA.................................TCCCCCCGGGCCCA... chr.trna39-MetCAT Sc: 93.97  
GCCGCCGTAGCTCAGCCtGGCAGAGCGCCGGACTCATAcggagccacgggtccgaagtcgactaagctcaggggagATCCGGTT...........GtCCCGGGTTCAAA.................................TCCCGGCGGCGGCA... chr.trna27-MetCAT Sc: 84.66  
AGCGGGGTAGGGCAGCCaGGTAGCCCGCGGGGCTCATA......................................ACCCCGAG...........GtCGGTGGTTCAAAacggagcggcttgaatggccgctccgggaaaat.CCACCCCCCGCTACCA chr.trna2-MetCAT Sc: 80.41  



Phe tRNAs



>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<....
GCCGCCGTAGCTCAGCCtGGGAGAGCGCCCGGCTGAAGACCGGGTT...........GtCCGGGGTTCAAATCCCCGCGGCGGCA... chr.trna37-PheGAA Sc: 88.65  



Pro tRNAs



>>>>>>>..>>>>...........<<<<.>>>>>............................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGGCCGTAGTCTAGCCtGGCt.AGGATGCCGGCCTGGGGggacaccccgctagccaggcctggtgtcacagag...CGCCGGTG...........AtCCCGGGTTCAAATCCCGGCGGCCCCA... chr.trna34-ProGGG Sc: 77.47  

>>>>>>>..>>>>...........<<<<.>>>>>............................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTCGTCTAGCCtGGActAGGATGCGGGGTTCGGGacccctataaaagccgccgctgaacaaggggcggaacTCCCCGTG...........AcCCGGGGTTCAAATCCCCGCGGGCCCA... chr.trna19-ProCGG Sc: 63.21  

>>>>>>>..>>>>...........<<<<.>>>>>............................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGGCCGTAGTCTAGCCtGGCt.AGGATGCGGGGCACACTaggctccaaataggacctagtgcccgagttggg....CCCCCGTG...........AcCCGGGGTTCAAATCCCCGCGGCCCCA... chr.trna28-ProTGG Sc: 83.85  



SeC tRNAs





Ser tRNAs



>>>>>>>..>>>..............<<<.>>>>>...................................................................<<<<<..>>>>>...........<<<<<...>>>>>.......<<<<<.<<<<<<<....
GCCGGGGTGCCCGAGC..GGActA.AGGGGCTGGCCTGGAG............................................................AGCCAGT.GCCCC.ATAC......GGGGCG.CGCGGGTTCGAATCCCGC.CCCCGGCGCCA chr.trna14-SerGGA Sc: 70.75  

>>>>>>>..>>>..............<<<.>>>>>...................................................................<<<<<..>>>>>...........<<<<<...>>>>>.......<<<<<.<<<<<<<....
GCCGGGGTGCCCGAGC..GGActA.AGGGGGTAGGCTCGAGacccaacacagaaaaccctccgcaaaacaagagggttttccggctaaccagaaacgagagACCTACT.GCCCC.GCGGa.....GGGGCG.CGCGGGTTCGAATCCCGC.CCCCGGCGCCA chr.trna4-SerCGA Sc: 48.45  

>>>>>>>..>>>..............<<<.>>>>>...................................................................<<<<<..>>>>.............<<<<...>>>>>.......<<<<<.<<<<<<<....
GCCGGGGTGCCCGAGC..GGTctA.AGGGGCTGGCCTTGAG............................................................AGCCAGTGGGCCAA.........GGGGCCCgCGCGGGTTCGAATCCCGC.CCCCGGCGCCA chr.trna20-SerTGA Sc: 71.75  


>>>>>>>..>>>>............<<<<.>>>>>...................................................................<<<<<..>>>.>...........<.<<<...>>>>>.......<<<<<.<<<<<<<....
GCCGGGGTCGCCTAGCCtGGT..A.GGGCGCCGGCCTGCTA............................................................AGCCGGTGGGGTG.GT........TCCCCG.CGCGGGTTCAAATCCCGC.CCCCGGCG... chr.trna17-SerGCT Sc: 79.19  



Sup tRNAs






Thr tRNAs



>>>>>>>..>>>>..........<<<<.>>>>>.............................................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GCCGCCGTAGCTCAGCCtGGTtGGAGCGCCGCCCTGGTAattatctcctggaa........................................AGGCGGAG...........GtCCCGGGTTCGAATCCCGGCGGCGGCT... chr.trna30-ThrGGT Sc: 80.20  

>>>>>>>..>>>>..........<<<<.>>>>>.............................................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GCCGCCGTAGCTCAGCTcGGT.AGAGCGCCGGCCTCGTAtcgggtacttgattaccggagtcgggaa..........................AGCCGGTG...........GtCGCGGGTTCAAATCCCGCCGGCGGCT... chr.trna40-ThrCGT Sc: 84.64  

>>>>>>>..>>>>..........<<<<.>>>>>.............................................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GCCGCCGTAGCTCAGCCcGGT.AGAGCGCCGGCCTTGTAagcccgaagagaccaaggaactaattcaggcccgtacaatacataggccgggagAGCCGGTG...........GtCGCGGGTTCAAATCCCGCCGGCGGCT... chr.trna46-ThrTGT Sc: 83.17  



Trp tRNAs


>>>>>>>..>>>>.........<<<<.>>>>.............................................................................................................<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTAGCTCAGCCaGGTAGAGCGGCGGACACCCCctcttaaactctataatggggggtggtcgaagctccagatcactgctatgggtcatatgacctcccaatggggaggaatgaattagatctggagggagtgACCCGTAG...........GtCGGGGGTTCAAATCCCCCCGGGCCCACCA chr.trna24-TrpCCA Sc: 77.75  



Tyr tRNAs



>>>>>>>..>>>>........<<<<.>>>>>....................................................................................................<<<<<................>>>>>.......<<<<<<<<<<<<....
CCCGCGGTAGCTCAGCGGCA.GAGCGCCCGGCTGTAGtggggaaaatctgagccccccacccgccagacatccccggaaacctggggaaatagaatgatggcggggcggcgaatagagggctcagcagatACCGGGTG...........GtCGGGGGTTCAAGTCCCCCCCGCGGGACCA chr.trna7-TyrGTA Sc: 65.31  



Val tRNAs



>>>>>>>..>>>>..........<<<<.>>>>>.......................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTCGTCTAGCCtGGTtAGGACGCCGCCCTGACGtgtctgggtaggcttagaa.............AGGCGGAG...........GtCCGGGGTTCAAATCCCCGCGGGCCCA... chr.trna25-ValGAC Sc: 81.08  

>>>>>>>..>>>>..........<<<<.>>>>>.......................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTGGTCTAGCCtGGTtAGGACGCCGCCCTCACA................................CGGCGGAG...........GtCCGGGGTTCAAATCCCCGCGGGCCCACCA chr.trna9-ValCAC Sc: 91.03  

>>>>>>>..>>>>..........<<<<.>>>>>.......................................<<<<<................>>>>>.......<<<<<<<<<<<<....
GGGCCCGTCGTCTAGCCtGGTtAGGACGCCGCCCTTACGagcggtatgaatatgtataggcccgttgagagAGGCGGAG...........GtCCGGGGTTCAAATCCCCGCGGGCCCA... chr.trna44-ValTAC Sc: 81.02

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.