GtRNAdb

tRNAscan-SE Analysis of Ignicoccus hospitalis KIN4 I

>> 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

.................>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... .................GGGCCGGTAGCTCAGCCtGGAAGAGCGCCCGGTTGGCAACCGGGAG...........GtCCCGGGTTCAAGTCCCGGCCGGTCCACCA chr.trna42-AlaGGC Sc: 91.16 .................>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... .................GGGCCCGTAGCTCAGCT.GGAAGAGCGCCGCCCTCGCAAGGCGGAG...........GtCCCGGGTTCAAATCCCGGCGGGTCCACCA chr.trna11-AlaCGC Sc: 91.86 .................>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... aagggagcccagccgacGGGCCGGTAGCTCAGCCtGGAAGAGCGCTCGGCTTGCACCCGAGAG...........GtCCCGGGTTCAAATCCCGGCCGGTCCACCA chr.trna32-AlaTGC Sc: 92.62

Arg tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>..........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGCCCCGTGGCCTAGCCtGGActAGGGCGCCGGCCTGCGG...................AGCCGGAG...........GtCCCGGGTTCAAATCCCGGCGGGGCCGCCA chr.trna21-ArgGCG Sc: 92.54 >>>>>>>..>>>>...........<<<<.>>>>>..........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGCCCCGTAGCTCAGCCaGGA..AGAGCGCGGGCCTCCGG...................AGCCCGTG...........GtCCCGGGTTCAAGTCCCGGCGGGGCCGCCA chr.trna17-ArgCCG Sc: 87.90 >>>>>>>..>>>>...........<<<<.>>>>>..........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCCCCGTAGCTCAGCCaGGA..AGAGCGCGGGCCTTCGG...................AGCCCGTG...........GtCGCGGGTTCAAATCCCGCCGGGGGCGCCA chr.trna3-ArgTCG Sc: 91.62 >>>>>>>..>>>>...........<<<<.>>>>>..........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGCCCCGTAGCTCAGCCaGGAc.AGAGCGCCGGCCTCCTAtcccgtgcggggttgggaaAGCCGGTG...........GtCCGGGGTTCAAATCCCCGCGGGGCCGCCA chr.trna16-ArgCCT Sc: 84.61 >>>>>>>..>>>>...........<<<<.>>>>>..........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGCCCCGTCGCCTAGCCaGGAt.AGGGCGCCGGCCTTCTA...................AGCCGGTA...........GtCCCGGGTTCAAATCCCGGCGGGGCCACCA chr.trna7-ArgTCT Sc: 89.15

Asn tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGGGGTAGCTCAGCTGGTAGAGCGCCGGGCTGTTAACCCGGTG...........GcCGGAGGTTCGAGTCCTCCCCCCGGCGCCA chr.trna36-AsnGTT Sc: 81.37

Asp tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCGCGGTAGTATAGCCtGGCccAGTATGCGGGCCTGTCAAGCCCGTG...........ACCCGGGTTCAAATCCCGGCCGCGGCGCCA chr.trna45-AspGTC Sc: 84.07

Cys tRNAs

>>>>>>>..>>>............<<<.>>>>>..................................<<<<<.................>>>>>.......<<<<<<<<<<<<.... GCCGGGGTGCCCGAGCGGCctA.AGGGGTCGGGCTGCAGtggagcgttggccaccgcccgttggatACCCGATC...........TctCCCGGGTTCGAATCCCGGCCCCGGCTCCA chr.trna2-CysGCA Sc: 58.88

Gln tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... AGCCGGGTCGTCTAGCGGCcaA.GGATGCGGGGCTCTGGCCCCCGTG...........ACCGGGGTTCGAATCCCCGCCCGGCTACCA chr.trna39-GlnCTG Sc: 69.66 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... AGCCGGGTCGTCTAGCGGCcaA.GGATGCGGGGCTTTGGCCCCCGTG...........ACCGGGGTTCGAATCCCCGCCCGGCTACCA chr.trna20-GlnTTG Sc: 70.22

Glu tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGTATAGTCcGGCcaAGTATGCGGGCCTCTCAAGCCCGTG...........ACCCGGGTTCAAATCCCGGCGGCGGCACCA chr.trna33-GluCTC Sc: 82.65 >>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGTATAGCCcGGCcaAGTATGCGGGCCTTTCAAGCCCGTG...........ACCCGGGTTCAAATCCCGGCGGCGGCACCA chr.trna10-GluTTC Sc: 83.85

Gly tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGCGGTCGTCTAGCCtGGActAGGACGCCGGCCTGCCACGCCGGAG...........AtCCCGGGTTCAAATCCCGGCCGCCGCACCA chr.trna5-GlyGCC Sc: 88.15 >>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGCGGTCGTCTAGCCtGGActAGGATGCCGGCCTCCCAAGCCGGTG...........AtCCCGGGTTCAAATCCCGGCCGCCGCACCA chr.trna35-GlyCCC Sc: 89.36 >>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGCGGTCGTCTAGCCtGGActAGGATGCCGGCCTTCCAAGCCGGTG...........AtCCCGGGTTCAAATCCCGGCCGCCGCACCA chr.trna22-GlyTCC Sc: 89.92

His tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.............................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGCTGGTtAGAGCGCGGGACTGTGGaggcccggctgaggccgcggagATCCCGAG...........GtCCCGGGTTCAAATCCCGGCGGCGGCCCCA chr.trna43-HisGTG Sc: 77.89

Ile tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTTAGCCcGGCAGAGCGCCCGGCTGATAACCGGGAG...........GcCGGGGGTTCAAATCCCCCCGGGCCCA... chr.trna19-IleGAT Sc: 90.23

Leu tRNAs

>>>>>>>..>>>.............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCCtGGCcaAAGGGGTCGGGCTGAGGACCCGATGGCGTAG....GCCTgCGTGGGTTCAAATCCCAC.CCCCCGCACCA chr.trna27-LeuGAG Sc: 79.89 >>>>>>>..>>>.............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCCtGGCcaAAGGGGTCGGGCTCAGGACCCGATGGCGTAG....GCCTgCGTGGGTTCAAATCCCAC.CCCCCGCACCA chr.trna14-LeuCAG Sc: 79.97 >>>>>>>..>>>.............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTGCCCGAGCCtGGCcaAAGGGGTCGGGCTTAGGACCCGATGGCGTAG....GCCTgCGTGGGTTCAAATCCCAC.CCCCGGCACCA chr.trna12-LeuTAG Sc: 80.91 >>>>>>>..>>>.............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTGCCCGAGCCaGGTcgAAGGGGGCGGGCTCAAGACCCGCTGGCGTAG....GCCGgCGTGGGTTCAAATCCCAC.CCCCCGCACCA chr.trna24-LeuCAA Sc: 77.04 >>>>>>>..>>>.............<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTGCCCGAGCCcGGAa.AAGGGGGCGGGCTTAAGACCCGCTGGCGTAG....GCCTgCGTGGGTTCAAATCCCAC.CCCCGGCACCA chr.trna15-LeuTAA Sc: 78.72

Lys tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>..................................<<<<<....................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTCAGCCtGGTAGAGCGGCGGGCTCTTAacccgtagaggcggggcttggcccgttTCCCGCCGCGGAA..........GtCCCGGGTTCAAATCCCGGCGGGCCCGCCA chr.trna9-LysCTT Sc: 93.13 GGGCCCGTAGCTCAGCCtGGTAGAGCGGCGGGCTCTTAacccgtagaggcggggcttggcccgttTCCCGCCGCGGAA..........GtCCCGGGTTCAAATCCCGGCGGGCCCGCCA chr.trna34-LysCTT Sc: 93.13 >>>>>>>..>>>>.........<<<<.>>>>>..................................<<<<<....................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTCAGCCaGGAAGAGCGCCGGGCTTTTA...........................ACCCGGTG...............GtCCCGGGTTCAAATCCCGGCGGGCCCGCCA chr.trna40-LysTTT Sc: 95.18

Met tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>........................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTCAGCCaGGC.AGAGCGCCGGGCTCATA.................................ACCCGGTG...........GtCCGGGGTTCGAATCCCCGCGGGCCCACCA chr.trna1-MetCAT Sc: 94.73 AGCGGGGTAGGGCAGCCtGGT.AGCCCGCGGGGCTCATA.................................ACCCCGAG...........GtCGGTGGTTCAAATCCACCCCCCGCTACCA chr.trna38-MetCAT Sc: 82.16 GCCGCCGTAGCTCAGCC.GGGcAGAGCGCCGGGCCCATAaggtccggtacgcgagaaccgaaggcttgggagACCCGGTG...........GcCCGGGGTTCAAATCCCCGCGGCGGCACCA chr.trna37-MetCAT Sc: 76.75

Phe tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGCGGGA.GAGCGCCCGGCTGAAGACCGGGTC...........GtCCGGGGTTCGAATCCCCGCGGCGGCA... chr.trna30-PheGAA Sc: 82.59

Pro tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>...........................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCGTCGTCTAGCTtGGT..AGGATGCCAGCCTGGGGagggaaatccccgcgtcccccggat...........CGCTGGTG...........GtCCCGGGTTCAAATCCCGGCGGCCCCACCA chr.trna6-ProGGG Sc: 73.69 >>>>>>>..>>>>...........<<<<.>>>>>...........................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTCGTCTAGCCtGGActAGGATGCGGGGTACGCCggcgagccccgcgacgggtccggcgcccgactcgggTCCCCGTG...........GcCCCGGGTTCAAATCCCGGCGGGCCCACCA chr.trna8-ProCGG Sc: 79.03 >>>>>>>..>>>>...........<<<<.>>>>>...........................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCGTCGTCTAGCTtGGT..AGGATGCGGGGCTTGGG....................................CCCCCGTG...........GtCCGGGGTTCAAATCCCCGCGGCCCCA... chr.trna28-ProTGG Sc: 82.28

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>..............<<<.>>>>>..................................<<<<<..>>>>.............<<<<...>>>>>.......<<<<<<<<<<<<.... GCCGGGGTGCCCGAGC..GGCccA.AGGGGGTGGCCTGGAG...........................AGCCACTCCCCCTG.........ATGGGGGgCGCGGGTTCGAATCCCGCCCCCGGCGCCA chr.trna46-SerGGA Sc: 67.03 >>>>>>>..>>>..............<<<.>>>>>..................................<<<<<...>>>.............<<<....>>>>>.......<<<<<<<<<<<<.... GCCGGGGTGCCCGAGC..GGCccA.AGGGGGTGGGCTCGAGacctccagcgcccgaagcgaccgagagACCCACTGCCCCA.ATCA......GGGGCG.CGCGGGTTCGAATCCCGCCCCCGGCGCCA chr.trna25-SerCGA Sc: 56.46 >>>>>>>..>>>..............<<<.>>>>>..................................<<<<<..>>>...............<<<...>>>>>.......<<<<<<<<<<<<.... GCCGGGGTGCCCGAGC..GGCccA.AGGGGCCGGCCTTGAG...........................AGCCGGTGGGG...GAAAc.......CCCG.CGCGGGTTCGAATCCCGCCCCCGGCGCCA chr.trna18-SerTGA Sc: 76.89 >>>>>>>..>>>>............<<<<.>>>>>..................................<<<<<..>>>...............<<<...>>>>>.......<<<<<<<<<<<<.... GCCGGGGTCGCCTAGCCtGGCc.A.GGGCGCCGGCCTGCTA...........................AGCCGGTGGGG...GAAAc.......CCCG.CGCGGGTTCAAATCCCGCCCCCGGCGCCA chr.trna4-SerGCT Sc: 82.90

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>....................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGCC.GGCAGAGCGCCGCCCTGGTA.............................AGGCGGAG...........GtCCCGGGTTCAAGTCCCGGCGGCGGCTCCA chr.trna13-ThrGGT Sc: 88.78 >>>>>>>..>>>>.........<<<<.>>>>>....................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGCCcGGCAGAGCGCCGGCCTCGTAcggccctccgagag...............AGCCGGTG...........GtCGCGGGTTCAAATCCCGCCGGCGGCTCCA chr.trna47-ThrCGT Sc: 86.51 >>>>>>>..>>>>.........<<<<.>>>>>....................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCCGTAGCTCAGCT.GGCAGAGCGCCGGCCTTGTAtccggtacctctgggagtaccggccggagAGCCGGTG...........GtCGCGGGTTCAAATCCCGCCGGCGGCTCCA chr.trna41-ThrTGT Sc: 82.22

Trp tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>..............................................................................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCGTAGCTCAGCCaGGCAGAGCGGCGGGCTCCAGacgaaatctacgggtctggaagagccgcgaggcgatgatcgcggtctggagcggtgacccgtgtaggagagACCCGTAG...........GtCGGGGGTTCAAATCCCCCCGGGCCCACCA chr.trna26-TrpCCA Sc: 76.18

Tyr tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.............................................................................<<<<<................>>>>>.......<<<<<<<<<<<<.... CCCGCCGTAGCTCAGCGGAA.GAGCGCCCGGCTGTAGggccctccaggcccgcccccggacccgaagggcccttaggcccgcgggatgagggggcgccggcccagacACCGGGTG...........GtCCGGGGTTCGAATCCCCGCGGCGGGACCA chr.trna44-TyrGTA Sc: 64.52

Val tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCGTCGTCTAGCCcGGAAGGACGCCGCCCTGACA................CGGCGGTA...........GtCCGGGGTTCAAATCCCCGCGGCCCCACCA chr.trna31-ValGAC Sc: 82.39 >>>>>>>..>>>>.........<<<<.>>>>>.......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCGTCGTCTAGCCcGGAAGGACGCCGCCCTCACA................CGGCGGTA...........GtCCGGGGTTCAAATCCCCGCGGCCCCACCA chr.trna23-ValCAC Sc: 82.47 >>>>>>>..>>>>.........<<<<.>>>>>.......................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCGTCGTCTAGCCcGGAAGGACGCCGCCCTTACGagccctgagctgggagAGGCGGTA...........GtCCGGGGTTCAAATCCCCGCGGCCCCACCA chr.trna29-ValTAC Sc: 77.00

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.