GtRNAdb

tRNAscan-SE Analysis of Sulfolobus acidocaldarius DSM 639

>> 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

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCGGTAGCTCAGCCtGGAAGAGTGCGTGGTTGGCATCCACGAG...........GtCCCGGGTTCAAATCCCGGCCGGTCCA... chr.trna10-AlaGGC Sc: 84.33 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCGGTAGCTCAGCCtGGAAGAGTGCTTGGCTCGCACCCAAGAG...........GtCCCGGGTTCAAATCCCGGCCGGTCCA... chr.trna20-AlaCGC Sc: 89.28 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCGGTAGCTCAGCCtGGAAGAGTGCTTGGCTTGCAACCGAGAG...........GtCCCGGGTTCAAATCCCGGCCGGTCCA... chr.trna27-AlaTGC Sc: 88.94

Arg tRNAs

>>>>>>>..>>>>.............<<<<.>>>.>>........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCCGTAGCTTAGCCaGGAc.A..GAGTGCTG.GCCTGCGG.................AGCCAGTG...........GtCCCGGGTTCAAATCCCGGCGGGTCCG... chr.trna18-ArgGCG Sc: 85.49 >>.>>>.....>...............<...>.>.>>........................<<<.<................>>>>>.......<<<<<.<<<.<<.... GGTCTTACGCCGT..TCtAGAacA..TCTTCCAGtGCCTGCGG.................AGCCAGTG...........GtCCCGGGTTCAAATCCCGGCGGGTCCG... chr.trna19-ArgGCG Sc: 20.12 Pseudo >>>>>>>..>>>>.............<<<<.>>>.>>........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCCGTAGCTTAGCCaGGAc.A..GAGTGCCA.GTCTCCGG.................AACTGGTG...........GtCCCGGGTTCAAATCCCGGCGGGTCCG... chr.trna9-ArgCCG Sc: 80.18 >>>>>>>..>>>>.............<<<<.>>>.>>........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCCGTAGCTCAGCCaGGAc.A..GAGCGCTG.GCCTTCGG.................AGCCAGTG...........GtCCCGGGTTCAAATCCCGGCGGGTCCG... chr.trna17-ArgTCG Sc: 88.32 >>>>>>>..>>>>.............<<<<.>>>.>>........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCCGTAGCTCAGCCaGGAc.A..GAGCGCCG.GCCTCCTAgtcggcgctgagaagacAGCCGGTG...........GtCCCGGGTTCAAATCCCGGCGGGTCCG... chr.trna24-ArgCCT Sc: 82.31 >>>>>>>..>>>>.............<<<<.>>>.>>........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCCGTAGCTCAGCCaGGAc.A..GAGCGCCG.GCCTTCTAgtcggcgctgagaggttAGCCGGTG...........GtCCCGGGTTCAAATCCCGGCGGGTCCG... chr.trna46-ArgTCT Sc: 83.20

Asn tRNAs

>>>>>>>..>>>>........<<<<.>>>>>....................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCGGTAGCTCAGTTGGCAGAGCGCCGGGCTGTTAaatccttacggacACCCGGTG...........GtCGGTGGTCCGAGTCCACCCCGCGGCG... chr.trna22-AsnGTT Sc: 65.79

Asp tRNAs

>>>>>>>..>>>>...............<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCGCGGTAGTCTAGC..GGTctA....GGATGGGGGCCTGTCGAGCCCTTG...........ACCCGGGTTCAAATCCCGGCCGCGGCG... chr.trna3-AspGTC Sc: 76.72 >.>>>>>..>>>.................<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<.<.... GGCGTGGGGGGTATCCCc..........CACTGCGGGCCTGTCAAGCCCGTG...........ACCCGGGTTCAAATCCCGGCCGCGGCA... chr.trna2-AspGTC Sc: 41.68

Cys tRNAs

>>>>>>>..>>>............<<<.>>>>>.......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGGGGTGGCCGAGCGGTctA.AGGCGGCGGGCCGCAGagtataacacgccgagACCCGTTATT.........TtCGCGGGTTCAAATCCCGCCCCCGGCT... chr.trna33-CysGCA Sc: 53.63

Gln tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... AGCCGGGTCGTCTAGCGGTcaA.GGATCCAGGGCTCTGGCCCCTGGG...........ACCAGGGTTCGAGTCCCTGCCCGGCTA... chr.trna4-GlnCTG Sc: 58.63 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... AGCCGGGTCGTCTAGCGGTcaA.GGATCCAGGGCTTTGGCCCCTGGG...........ACCAGGGTTCGAGTCCCTGCCCGGCTA... chr.trna25-GlnTTG Sc: 59.19

Glu tRNAs

>>>>>>>..>>>>...........................<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCGCGGTAGTACAGCCcGGTcAagcttaatgcgccggtaGTATGCGGGCCTCTCAAGCCCGTG...........ACCCGGGTTCAAATCCCGGCCGCGGCA... chr.trna12-GluCTC Sc: 83.74 >>>>>>>..>>>>...........................<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCGCGGTAGTATAGCCcGGTcAagtgtaatgcgccgataGTATGCGGGCCTTTCGAGCCCGTG...........ACCCGGGTTCAAATCCCGGCCGCGGCA... chr.trna1-GluTTC Sc: 83.05

Gly tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGCCGTAGTCTAGCCtGGAttAGGACGCCTGCCTGCCA...............CGCAGGAG...........GtCCCGGGTTCAAATCCCGGCGGTCGCA... chr.trna43-GlyGCC Sc: 83.53 >>>>>>>..>>>>...........<<<<.>>>>>......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGCCGTCGTCTAGTCtGGAttAGGACGCTGGCCTCCCAttctttagagtggaaAGCCAGCA...........AtCCCGGGTTCGAATCCCGGCGGCCGCA... chr.trna42-GlyCCC Sc: 73.59 >>>>>>>..>>>>...........<<<<.>>>>>......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGCCGTCGTCTAGTCtGGAttAGGACGCTGGCCTTCCAtcagtcagggaggagAGCCAGCA...........AtCCCGGGTTCGAATCCCGGCGGCCGCA... chr.trna23-GlyTCC Sc: 74.64

His tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCTCGGGTAGCTCAGCCtGGTtAGAGCGATGGGCTGTGGACCCATAG...........GtCCCGGGTTCAAGTCCCGGCCCGAGCC... chr.trna45-HisGTG Sc: 81.31

Ile tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTTAGCCtGGTAGAGCGTCCGGCTGATAACCGGAAG...........GcCGTGGGTTCAAATCCCACCGGGCCCA... chr.trna28-IleGAT Sc: 90.17

Leu tRNAs

>>>>>>>..>>>.............<<<.>>>>>.........................<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCAaGGTcaAAGGGGGCGGACTGAGG..................CTCCGCTGGTGTAG....GCCTgCGTGGGTTCAAGTCCCAC.CCCCCGCA... chr.trna13-LeuGAG Sc: 66.50 >>>>>>>..>>>.............<<<.>>>>>.........................<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCAaGGTcaAAGGGGTCGGGCTCAGGaccatatggtgagac...CCCCGATGGTGTAG....GCCTgCGTGGGTTCAAATCCCAC.CCCCCGCA... chr.trna7-LeuCAG Sc: 61.67 >>>>>>>..>>>.............<<<.>>>>>.........................<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCAaGGTcaAAGGGGTCGGGCTTAGGaccccaaacgggtaagatCCCCGATGGTGTAG....GCCTgCGTGGGTTCAAATCCCAC.CCCCCGCA... chr.trna30-LeuTAG Sc: 61.40 >>>>>>>..>>>.............<<<.>>>>>.........................<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCT.GGTcaAAGGGGGCGGACTCAAG..................ATCCGCTGGCGAAG....GCCTaCGCGGGTTCAAATCCCGT.CCCCCGCA... chr.trna15-LeuCAA Sc: 69.34 >>>>>>>..>>>.............<<<.>>>>>.........................<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCA.GGTcaAAGGGGGCGGACTTAAG..................ATCCGCTGGCGTAG....GCCTgCGTGGGTTCAAATCCCAC.CCCCCGCA... chr.trna5-LeuTAA Sc: 72.92

Lys tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>...................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTCAGCCaGGTAGAGCGGCGGGCTCTTAatctaagccgtagcaaggtagaggagatACCCGTAG...........GtCCCGGGTTCAAATCCCGGCGGGCCCG... chr.trna34-LysCTT Sc: 81.42 >>>>>>>..>>>>.........<<<<.>>>>>...................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTCAGCCaGGTAGAGCGGCGGGCTTTTAaccgcgggtcgcgcgggaagcg......ACCCGTAG...........GtCCCGGGTTCAAATCCCGGCGGGCCCG... chr.trna11-LysTTT Sc: 90.32

Met tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>...........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGCCtGGTtAGAGCGCCGGACTCATAcggtaatgtaaatctgggatATCCGGTT...........GtCCGGGGTTCAAATCCCCGCGGCGGCA... chr.trna16-MetCAT Sc: 85.25 GGGCCCGTAGCTTAGCCcGGT.AGAGCGCCCGGCTCATAaactatgtatgtggagag..ACCGGGTG...........GtCCGGGGTTCAAGTCCCCGCGGGCCCA... chr.trna8-MetCAT Sc: 81.69 AGCGGCGTAGGGAAGCCtGGT.ATCCCGCAGGGCTCATA....................ACCCTGAG...........GtCCCTGGTTCAAATCCAGGCGCCGCTA... chr.trna44-MetCAT Sc: 80.08

Phe tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGCCcGGGAGAGCGCCCGGCTGAAGtttttaatactcgcagtgACCGGGTT...........GtCCGGGGTTCAAGTCCCCGCGGCGGCA... chr.trna41-PheGAA Sc: 75.00

Pro tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>............................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCGTAGTCTAGCTtGGActAGGATGCCAGCCTGGGGatatttccctaaccaccagtaCGCTGGTG...........GtCCCGGGTTCAAATCCCGGCGGCCCCA... chr.trna14-ProGGG Sc: 72.14 >>>>>>>..>>>>...........<<<<.>>>>>............................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTGGTCTAGCTaGGAttAGGATGCGGCGTTCGGG.....................TCGCCGTG...........GtCCCGGGTTCAAATCCCGGCGGGCCCA... chr.trna21-ProCGG Sc: 75.25 >>>>>>>..>>>>...........<<<<.>>>>>............................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCGTAGTCTAGCTtGGActAGGATGCCAGGCTTGGG.....................CCCTGGTG...........GtCCCGGGTTCAAATCCCGGCGGCCCCA... chr.trna49-ProTGG Sc: 83.31

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>..............<<<.>>>>>................................<<<<<...>>>.............<<<.....>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTGCCCGAGT..GGActA.AGGGGCTGGCCTGGAG.........................AGCCAGTGTGGAT...........CTTCCAcgCGCGGGTTCAAATCCCGC.CCCCGGCG... chr.trna37-SerGGA Sc: 64.06 >>>>>>>..>>>..............<<<.>>>>>................................<<<<<..>>>>>...........<<<<<....>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTGCCCGAGC..GGAccA.AGGGGGTAGGCTCGAGaccatttccagcgtcaaggcgggcgACCTACT.GCCTCTC........CGAGGCA..CGCGGGTTCAAATCCCGC.CCCCGGCG... chr.trna6-SerCGA Sc: 51.08 >>>>>>>..>>>..............<<<.>>>>>................................<<<<<..>>>...............<<<....>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTGCCCGAGC..GGTccA.AGGGGCTGGCCTTGAG.........................AGCCAGTAGGG....TTAT.......CCCTg.CGTGGGTTCAAATCCCAC.CCCCGGCG... chr.trna32-SerTGA Sc: 70.15 >>>>>>>..>>>>............<<<<.>>>>>................................<<<<<..>>>...............<<<....>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTCGCCTAGCTcGGT..A.GGGCGGAGGCCTGCTA.........................AGCCTCTGGGGTCC.........CACCCCG..CGCGGGTTCAAATCCCGC.CCCCGGCGCCA chr.trna47-SerGCT Sc: 73.12

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>..................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCGGTAGCTCAGCCtGGCtAGAGCGTTGCCCTGGTA...........................AGGCAAAG...........GtCCCGGGTTCAAATCCCGGCCGCGGCT... chr.trna29-ThrGGT Sc: 89.15 >>>>>>>..>>>>..........<<<<.>>>>>..................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGCAcGGTcAGAGCGCCGGCCTCGTAaggcctaagtaagaagtgatccaggacAGCCGGTG...........GtCCCGGGTTCAAATCCCGGCGGCGGCT... chr.trna36-ThrCGT Sc: 83.24 >>>>>>>..>>>>..........<<<<.>>>>>..................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGCAcGGCcAGAGCGCTGGCCTTGTAaggatggcttcaggac...........AGCCAGTG...........GtCCCGGGTTCAAATCCCGGCGGCGGCT... chr.trna26-ThrTGT Sc: 82.04

Trp tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>...................................................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCATAGCTCAGCCaGGTAGAGTGCCGGGCTCCAGatgagctgcattgggtcttaagacccccttgttgggggatgatatagatctggaggagagACCCGGTG...........GtCCGGGGTTCAAGTCCCCGTGGGCCCA... chr.trna48-TrpCCA Sc: 75.25

Tyr tRNAs

>>>>>>>..>>>>............<<<<.>>>>>......................<<<<<................>>>>>.......<<<<<<<<<<<<.... CCCGCCGTAGCTCAGCCcGGTtctAGAGCGCCCGGCTGTAGgttaggagggcagttACCGGGTG...........GtCCGGGGTTCAAGTCCCCGCGGCGGGA... chr.trna31-TyrGTA Sc: 74.52

Val tRNAs

>>>>>>>..>>>>...............<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GGGCCCGTCGTCTAGCCtGGTtA.....GGACGCTGCCCTGACGCGGCAGAA...........AtCCTGGGTTCAAGTCCCAG.CGGGCCCA... chr.trna38-ValGAC Sc: 78.62 >>>>>>>..>>>>...............<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GGGCCCGTAGTCTAGCCtGGTtA.....GGACGCTGCCCTCACACGGCAGAA...........GtCCCGAGTTCAAATCTCGG.CGGGCCCA... chr.trna35-ValCAC Sc: 83.13 >>>>>>>..>>>>...............<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GGGCCCGTCGTCTAGCCtGGTtA.....GGACGTCGCCCTTACAAGGCGGAG...........GtCCTGGGTTCAAATCCCAG.CGGGCCCA... chr.trna39-ValTAC Sc: 87.40 .>>>.>>...>>.................<<....>>>.......<<<..................>>>>>.......<<<<<.<<.<<<..... AGGCGTG.AATT......GGTaA....cAAAAAGAGTCCTTACAAGGCGGAG...........GtCCTGGGTTCAAATCCCAG.CGGGCCCA... chr.trna40-ValTAC Sc: 25.08

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.