GtRNAdb

tRNAscan-SE Analysis of Caldicellulosiruptor saccharolyticus DSM 8903

>> 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

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGATGTAGCTCAGTTGGGAGAGCACCTGCCTTGCAAGCAGGGG...........GtCAGGAGTTCGAATCTCCTCATCTCCACCA chr.trna29-AlaTGC Sc: 97.84 GGGGATGTAGCTCAGTTGGGAGAGCACCTGCCTTGCAAGCAGGGG...........GtCAGGAGTTCGAATCTCCTCATCTCCACCA chr.trna1-AlaTGC Sc: 97.84

Arg tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCCCATAGCTCAATTGGAtA.GAGCATCAGACTACGGATCTGAGG...........GtTGGGGGTTCGAGTCCTCCTGGGCGCGCCA chr.trna21-ArgACG Sc: 85.25 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCCCGTAGCTCAGA.GGAtA.GAGCGTAGGACTTCGAATCCTGTG...........GtCGGGGGTTCGAGTCCCCCCGGGCGTGCCA chr.trna44-ArgTCG Sc: 83.33 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCCCGTAGCTCAGCAGGAtA.GAGCAATGGTTTCCTAAACCATGT...........GcCGGAGGTTCGAGTCCTCTCGGGCGCACCA chr.trna42-ArgCCT Sc: 83.91 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCCCATAGCTCAGCTGGAtA.GAGCAACGGACTTCTAATCCGTTG...........GcCGGGGGTTCGAATCCTCCTGGGCGCGCCA chr.trna8-ArgTCT Sc: 90.40

Asn tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... TCCTCGGTAGCTCAGCGGTG.GAGCATCCGGCTGTTAACCGGAGG...........GtCGTAGGTTCGAATCCTACCCGGGGAGCCA chr.trna23-AsnGTT Sc: 85.92

Asp tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGCCCAGTAGCTCAGTCGGTtAGAGCGCCAGCCTGTCACGCTGGAG...........GtCGAGGGTTCAAGTCCCTTCTGGGTCGCCA chr.trna11-AspGTC Sc: 94.23

Cys tRNAs

>>>>>>>..>>>..........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGCGCCATAGCCAAGCGGTA.AGGCAAGGGTCTGCAAAATCCTGA...........TtCCCCGGTTCAAATCCGGGTGGCGCCTCCA chr.trna14-CysGCA Sc: 75.30

Gln tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<..................>>>>>.......<<<<<.<<<<<<<.... TGCGGGATGGTGTAATGGTA.GCACAGGTGACTCTGGATCACCTT..............GTCTAGGTTCGAGTCCTAG.TCCCGCAGCCA chr.trna27-GlnCTG Sc: 67.06 >>>>>>>..>>>..........<<<.>>>>>.......<<<<<..................>>>>>.......<<<<<.<<<<<<<.... TGGGGTGTCGCCAAGCGGTA.AGGCACAGGACTTTGACTCCTGCATTC............CGGTGGTTCGAATCCACC.CACCCCAGCCA chr.trna16-GlnTTG Sc: 70.79

Glu tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GGCCCTATCGTCTAGAGGCctA.GGACACCGCCCTCTCACGGCGGAG...........ACAGGGGTTCGAATCCCCTTAGGGCTACCA chr.trna28-GluCTC Sc: 66.66 >>>>>>>..>>>............<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GGCCCCGTGGTCAAGTGGTt.A.AGACACAGGCCTTTCACGCCTGTA...........ACAGGGGTTCGAATCCCCTCGGGGTCACCA chr.trna38-GluTTC Sc: 78.95 GGCCCCGTGGTCAAGTGGTt.A.AGACACAGGCCTTTCACGCCTGTA...........ACAGGGGTTCGAATCCCCTCGGGGTCACCA chr.trna26-GluTTC Sc: 78.95

Gly tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGGAATAGCTCAGGTGGTA.GAGCGCTACCTTGCCAAGGTAGAT...........GtCGCGGGTTCGAGTCCCGTTTCCCGCTCCA chr.trna13-GlyGCC Sc: 91.60 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGGTGTAGTTCAAT.GGTA.GAACACCAGCTTCCCAAGCTGGTA...........G.CGTGGGTTCGATTCCCATCACCCGCTCCA chr.trna32-GlyCCC Sc: 86.50 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGGTGTAGTTCAAT.GGTA.GAACACCAGCCTTCCAAGCTGGTA...........G.CGTGGGTTCGATTCCCATCACCCGCTCCA chr.trna18-GlyTCC Sc: 88.11

His tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GTGGATATAGCTCAGTTGGTtAGAGCGCCAGGTTGTGGCCCTGGAG...........GtCATGGGTTCGAGTCCCATTATCCACCCCA chr.trna15-HisGTG Sc: 89.65

Ile tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCTTATAGCTCAGGTGGTtAGAGCGTACGCCTGATAAGCGTAAG...........GtCGGTGGTTCGAGTCCACCTAAGCCCACCA chr.trna30-IleGAT Sc: 94.29 GGGCTTATAGCTCAGGTGGTtAGAGCGTACGCCTGATAAGCGTAAG...........GtCGGTGGTTCGAGTCCACCTAAGCCCACCA chr.trna2-IleGAT Sc: 94.29

Leu tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>>...........<<<<<..>>>>>.......<<<<<.<<<<<<<.... GCCGAGATGGTGGAATTGGCaGACACGCTACTTTGAGGGGGTAGTGGGCG.TTA.......TGCCCGTGCGAGTTCGAGTCTCGC.TCTCGGCACCA chr.trna20-LeuGAG Sc: 60.61 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.............<<<<..>>>>>.......<<<<<.<<<<<<<.... GCGGATGTGGCGGAACTGGCaGACGCGCAAGACTCAGGATCTTGTGGGGCT.........CTCCCCATGGGGGTTCAAATCCCCC.CATCCGCACCA chr.trna39-LeuCAG Sc: 72.00 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>...............<<<..>>>>>.......<<<<<.<<<<<<<.... GCGGGTATGGCGGAATTGGCaGACGCGCTAGACTTAGGATCTAGTGGCAA...........CAGCCGTGGGGGTTCAAGTCCCTC.TACCCGCACCA chr.trna34-LeuTAG Sc: 77.00 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.............<<<<..>>>>>.......<<<<<.<<<<<<<.... GCCGAAGTGGTGGAACTGGCaGACGCGCTGGACTCAAAATCCAGTGGCC..GCTGa......GGCCGTGCGGGTTCGACTCCCGC.CTTCGGCACCA chr.trna3-LeuCAA Sc: 72.53 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>>...........<<<<<..>>>>>.......<<<<<.<<<<<<<.... GCCGGAGTGGCGGAACTGGCaGACGCACAGGACTTAAAATCCTGGGACCT.GAATa.....AGGTCGTACCGGTTCAAGTCCGGT.TTCCGGCACCA chr.trna35-LeuTAA Sc: 74.71

Lys tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCCATTAGCTCAGTTGGTAGAGCAGCTGACTCTTAATCAGCGG...........GtCTGGGGTTCGAGTCCCTAATGGCGCACCA chr.trna7-LysCTT Sc: 95.64 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCATTAGCTCAGTAGGCAGAGCACCAGCCTTTTAAGCTGGGT...........GtCCCGCGTTCGAGTCGCGGATGGCTCACCA chr.trna25-LysTTT Sc: 85.02 GGGCCATTAGCTCAGTAGGCAGAGCACCAGCCTTTTAAGCTGGGT...........GtCCCGCGTTCGAGTCGCGGATGGCTCACCA chr.trna17-LysTTT Sc: 85.02

Met tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGCGGCGTAGCTCAGTTGGCtAGAGCATGCGGTTCATACCCGCAGT...........GtCAGCGGTTCGAATCCGTTCGCCGCCACCA chr.trna37-MetCAT Sc: 92.07 .>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<..... CGCGGGGTGGAGCAGCTGGT.AGCTCGTCGGGCTCATAACCCGAAG...........GtCGGAGGTTCAAATCCTCCCCCCGCAACCA chr.trna36-MetCAT Sc: 91.01 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCTTTAGCTCAGCTGGT.AGAGCGGCCGGCTCATAACCGGTTG...........GtCTGGGGTTCGAATCCCTAAGGGCCCACCA chr.trna24-MetCAT Sc: 90.70

Phe tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCTCGGTAGCTCAGTTGGTAGAGCAGAGGACTGAAAATCCTCGT...........GtCGGTGGTTCGATTCCGCCCCGAGGCACCA chr.trna12-PheGAA Sc: 90.94

Pro tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<.................>>>>>.......<<<<<<<<<<<<.... CGGGGCGTAGCTCAGTTtGGTtAGAGCGCTAGCTTGGGGTGCTAGAG...........GttCGCTGGTTCAAGTCCAGTCGCCCCGACCA chr.trna41-ProGGG Sc: 86.76 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<.................>>>>>.......<<<<<<<<<<<<.... CGGGATGTGGCTCAGTTtGGCtAGAGCGCCTGGTTCGGGACCAGGAG...........Gt.CGCAGGTTCAAGTCCTGTCATCCCGACCA chr.trna45-ProCGG Sc: 93.10 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<.................>>>>>.......<<<<<<<<<<<<.... CGGGGTGTAGCTCAGCTtGGT.AGAGCACGTGGTTTGGGACCATGGG...........Gc.CGGAGGTTCAAGTCCTCTCACCCCGACCA chr.trna4-ProTGG Sc: 86.25

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>>>>>.....<<<<<<<.>>>>>.......<<<<<..<<<<<<<.... GGAGAGATGGCCGAGTGGTcgA.AGGCGCACGACTGGAAATCGTGT.GTACCCCCAAAaGGGGTACCGTGGGTTCAAATCCCAC..TCTCTCCGCCA chr.trna46-SerGGA Sc: 74.60 >>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>>>>>.....<<<<<<<.>>>>>.......<<<<<..<<<<<<<.... GGAGAGATGGCCGAGTGGTcgA.AGGCACGCGACTCGAAATCGCGC.GTACCGCCAAAaGCGGTACCGTGGGTTCGAATCCCAC..TCTCTCCGCCA chr.trna43-SerCGA Sc: 76.17 >>>>>>>..>>>............<<<.>>>>>.......<<<<<...>>>>>.......<<<<<..>>>>>.......<<<<<..<<<<<<<.... GGAAGGGTGTCCGAGTGGTttA.AGGAGCTGGTCTTGAAAACCAGTGACCCGC.TTAC..GCGGGCCGTGGGTTCGAATCCCAC..CCCTTCCGCCA chr.trna31-SerTGA Sc: 76.00 >>>>>>>..>>>............<<<.>>>>>.......<<<<<...>>>>>.......<<<<<..>>>>>.......<<<<<..<<<<<<<.... GGAGAAGTACTCAAGTGGTg.A.AGAGGCGCCCCTGCTAAGGGCGTAGGTCGG.GTAAaACCGGCGCGAGGGTTCGAGTCCCTC..CTTCTCCGCCA chr.trna9-SerGCT Sc: 77.25

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCCACGTAGCTCAGTAGGTcA.GAGCGTCACCTTGGTAAGGTGGAG...........GtCACCGGTTCGATTCCGGTCGTGGGCTCCA chr.trna33-ThrGGT Sc: 87.20 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCTCCATTAGCTCAGT.GGT.A.GAGCAGTCGATTCGTAATCGACTG...........GtCGGGGGTTCGAATCCCCCATGGAGCTCCA chr.trna19-ThrCGT Sc: 91.34 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>.>>>.......<<<.<<<<<<<<.... GCTGGCGTAGCTCAATCGGT.A.GAGCAGCCGACTTGTAATCGGCAG...........GtTGCGGGTTCGAGTCCCATCGCCAGCTCCA chr.trna6-ThrTGT Sc: 87.14

Trp tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... AGGGGCGTAGCTCAATTGGTAGAGTAGCGGTCTCCAAAACCGTTG...........GcTGGGGGTTCGAGTCCCTCCGCCCCTGCCA chr.trna22-TrpCCA Sc: 80.49

Tyr tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GGAGGGGTACCCAAGTGGTcaA.AGGGGGCAGACTGTAAATCTGTTGCCGCA.....GGCTtCGTTGGTTCGAATCCAAC.CCCCTCCACCA chr.trna5-TyrGTA Sc: 76.03

Val tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGATATAGCTCAGTTGGTtAGAGCGCTTGCTTGACATGCAAGAG...........GtCATAGGTTCGAGTCCTATTATCCCCACCA chr.trna40-ValGAC Sc: 99.28 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGGTTAGCTCAGCTGGG.AGAGCACCTGCCTTACAAGCAGGGG...........GtCGCAGGTTCGAGCCCTGCACTGCCCACCA chr.trna10-ValTAC Sc: 96.51

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.