GtRNAdb

tRNAscan-SE Analysis of Candidatus Pelagibacter ubique HTCC1062

>> 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

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGGATTAGCTCAGCTGGGAGAGCGCCTGATTTGCATTCAGGAG...........GtCAGCGGTTCGATCCCGCTATCCTCCACCA chr.trna6-AlaTGC Sc: 91.63

Arg tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCGCTGGCCAAATTGGAtAAGGCGCTCGGCTACGAACCGGGAG...........AtTCCAGATTCGAGTTCTGGGCGGTCCACCA chr.trna28-ArgACG Sc: 65.91 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCTTGTAGCTCAACTGGAtAGAGCGCCTGACTTCGGATCAGGAG...........GtTCTGGGTTCGACTCCTAGCAGGCGCACCA chr.trna7-ArgTCG Sc: 82.73 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCTCTTAGCTCAGCTGGAtAGAGCATCGGTTTTCTAAACCGAGG...........GtCGGTGGTTCGAGTCCACCAGAGCGCACCA chr.trna11-ArgTCT Sc: 92.24

Asn tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... TCCTCGGTAGCTCAGTTGGTAGAGCAGTTGACTGTTAATCAATTG...........GtCGCAGGTTCGAGTCCTGCCCGAGGAGCCA chr.trna25-AsnGTT Sc: 94.05

Asp tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGGTGTAGCTCAGTTGGTtAGAGCGATCGCCTGTCACGCGATAG...........GtCGAGGGTTCGAGTCCCTTCACTCCCGCCA chr.trna10-AspGTC Sc: 95.42

Cys tRNAs

>>>>>>>..>>>..........<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GGCATCGTGGCGGAATGGTT.ACGCAGAGGATTGCAAATCCTTGT...........ATCCCAGTTCGATTCTGGGCGATGCCTCCA chr.trna24-CysGCA Sc: 58.99

Gln tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<.<<<<<<<.... TGGCCCATGGTGAAGTGGTA.TCACATCTGTTTTTGGTACAGAG...........AtCCGAGGTTCGAATCCTTG.TGGGCCAGCCA chr.trna30-GlnTTG Sc: 67.55

Glu tRNAs

>>>>>>>..>>>>.........<<<<.>>.>>.......<<.<<...............>>>>>.......<<<<<<<<<<<<.... GGTCCCTTCGTCTATCGGTtA.GGACAGCTGGTTTTCATCCTGCAA...........AGGGGGGTTCGATTCCCCCAGGGACCGCCA chr.trna14-GluTTC Sc: 51.21

Gly tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGGTCTAGCTCATTGGTA.GAGCGAATCGTTGCCAACGATTAG...........GtAGAGGGTTCGATTCCCTTGACCCGCTCCA chr.trna29-GlyGCC Sc: 74.83 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGGTGTAGTTCAATGGTA.GAACGCTAGCCTTCCAAGCTGGAT...........G.TAAGAGTTCGATTCTCTTTACCCGCTCCA chr.trna20-GlyTCC Sc: 74.18

His tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCCTGCGTAGTATAACGGTtA.GTACGATAGTTTGTGGAACTATAG...........GATTTGGTTCGATTCCAAGCGCGGGTACCA chr.trna4-HisGTG Sc: 53.22

Ile tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCGGTAGCTCAGTTGGTtAGAGCACACCCTTGATAAGGGTGGG...........GtCGAAAGTTCGAGTCTTTCTCGGCCCACCA chr.trna5-IleGAT Sc: 95.39

Leu tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>........<<<..>>>>>.......<<<<<.<<<<<<<.... GGGCGAATGGCGGAATTGGTaGACGCGCTGGTCTTAGGAACCAGTATTGAAA....GATGTGAAGGTTCGAGTCCTTT.TTCGCCTACCA chr.trna8-LeuTAG Sc: 74.67 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>........<<<..>>>>>.......<<<<<.<<<<<<<.... GGGCGAGTGGCGGAACTGGTaGACGCGCACGACTCAAAATCGTGTTTCGCAA....GAAGTGAGAGTTCGATTCTCTC.TTCGCCCACCA chr.trna1-LeuCAA Sc: 74.88 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<..>>........<<...>>>>>.......<<<<<.<<<<<<<.... GCCCTCGTGGTGAAATTGGTaGACACAACGGACTTAAAATCCGTGCCTTTTT....GGAGTGCCAGTTCGAGTCTGGC.CGAGGGCACCA chr.trna18-LeuTAA Sc: 70.17

Lys tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCCTTAGCTCAGTTGGTAGAGCAATTCCCTTTTAAGGAATGG...........GtCGATGGTTCGAGTCCATCAGGGCTCACCA chr.trna12-LysTTT Sc: 95.22

Met tRNAs

>>>>>>>.........>>>>............<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCTGTA.......GCTCAGTT.GGTtA..GAGCAGTACACTCATAATGTATTG...........GtCCCAGGTTCGAGTCCTGGCGGGCCCACCA chr.trna32-MetCAT Sc: 94.93 .>>>>>>.........>>>>............<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<..... CGCGGGGTG.......GAGCAGTCtGGT.A..GCTCGTCAGGCTCATAACCTGAAG...........GtCGGCGGTTCAAATCCGTCCCCCGCAACCA chr.trna26-MetCAT Sc: 86.84 >>>>>>>.........>>>>............<<<<.>>>>.........<<<<................>>>>>.......<<<<<<<<<<<<.... GGCGGGGTA.......GCTCAGTC.GGTtA..GAGCGCAGGACTCATAAGCCTGAG...........GtCAGTGGTTCGATTCCACTTCCCGCTACCA chr.trna16-MetCAT Sc: 86.54 .>>.>>>..........>>>............<<<..>>>>.........<<<<................>>>>>.......<<<<<<<<.<<..... TGCAGGATGcgttggcTCCAAG...GGTcA..TGGCGCAGGACTCATAAGCCTGAG...........GtCAGTGGTTCGATTCCACTTCCCGCTACCA chr.trna17-MetCAT Sc: 37.35

Phe tRNAs

>>>>>>>..>>>>........<<<<..>>>>.......<<<<.................>>>>>.......<<<<<<<<<<<<.... GGCCCTGTAGCTCAGTTGGTAGAGCATCGGATTGAAAATCCGTGT...........GtCACTGGTTCGAGTCCAGTTGGGGCCACCA chr.trna3-PheGAA Sc: 88.93

Pro tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... CGGGGCGTAGCGCAGCCtGGTAGCGCATCTGGTTTGGGACCAGAGG...........GtCGCAGGTTCAAATCCTGCCGCCCCGACCA chr.trna13-ProTGG Sc: 91.76

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>>>>........<<<<<.>>>>>.......<<<<<..<<<<<<<.... GGAGAGATGGCTGAGCGGTttA.AAGCGCACGCTTGGAAAGTGTGTGTACTG.TTAA.AGGTACCCAGGGTTCGAATCCCTG..TCTCTCCGCCA chr.trna2-SerGGA Sc: 75.32 >>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>>>>>......<<<<<<.>>>>>.......<<<<<..<<<<<<<.... GGAGAGATGGCAGAGCGGTtgA.ATGCACCGGTCTTGAAAACCGGCAAAGGG.GCAA.CTCTTTCCTGAGTTCGAATCTCAG..TCTCTCCGCCA chr.trna23-SerTGA Sc: 69.56 >>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>>>>>>....<<<<<<<.>>>>>.......<<<<<..<<<<<<<.... GGAAGAGTGGGTGAGAGGCtgA.AACCAGTCGTTTGCTAAATGACCGTGCGGGGAAACTTGTACCGAGGGTTCGAATCCCTC..CTCTTCCGCCA chr.trna22-SerGCT Sc: 56.48

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCCCCTATAGTTAAAT.GGCA.TAACATGTCCATGGTAAGGATAA............AtTTCAAGTTCGATTCTTGG.TGGGGGCACCA chr.trna27-ThrGGT Sc: 57.91 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCCCTTGTAGCTCAGCTGGTA.GAGCAATTGATTTGTAATCAATAG...........GtCCGCGGTTCGACTCCGTG.CGGGGGCACCA chr.trna15-ThrTGT Sc: 88.14

Trp tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... AGGAGTGTAGCTCAATTGGTAGAGTGCCGGTCTCCAAAACCGGAG...........GtTGAGGGTTCGATTCCCTCCGCTCCTGCCA chr.trna21-TrpCCA Sc: 83.23

Tyr tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>>>........<<<<...>>>>>.......<<<<<.<<<<<<<.... GGAGGGGTTCCAGAGCGGTcaA.ATGGGGCGGGCTGTAAACCCGTTGACTT......CGGTCTtCGAAAGTTCGAATCTTTC.CCCCTCCACCA chr.trna19-TyrGTA Sc: 64.91

Val tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGACTGTAGCTCAAT.AGTA.GAGTACTGCATTGACATTGCAGGG...........GtAGTTGGAGCGTAACCAACCAGTCCCACCA chr.trna31-ValGAC Sc: 41.04 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGGTTAGCTCAGTTGGTA.GAGCATCTCGTTTACACCGAGGGG...........GtCAAAGGTTCGAGTCCTTTACTGCCCACCA chr.trna9-ValTAC Sc: 90.26

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.