GtRNAdb

tRNAscan-SE Analysis of Cenarchaeum symbiosum

>> 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

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<....................... GGGCCGGTCGTCTAGTCtGGTA.GGATGCGCCCTTGGCATGGGCGAG...........AtCGAGGGTTCAAATCCCTCTCGGTCCACCA................... chr.trna28-AlaGGC Sc: 73.85 >>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<....................... GGGCCGGTGGTTTAGG..GGTA.TAATGCTGCGTTCGCAACGCAGAA...........GtCGGGGGTTCAATTCCCTCCCGGTCCACCActatacaggcaaagcggga chr.trna43-AlaCGC Sc: 72.31 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<....................... GGGCTGATAGTATAGACtGGTA.GTATACCCGCCTTGCACGCGGGGG...........GtCGGGGGTTCAAATCCCCCTCAGTCCACCA................... chr.trna7-AlaTGC Sc: 73.68

Arg tRNAs

>>>>>>>..>>>>................................<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCTCGTTGCATAGCAtGGAtA......................GTGCGATCGCTTGCGGAGCGATAG...........GtCGCCGGTTCGAATCCGGTCGGGCCCG... chr.trna41-ArgGCG Sc: 62.83 >>>>>>>..>>>>................................<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCCGTTGCATAGCCtGGAtA......................GTGCAGGTGATTCCGGATCATCAG...........GtCGGGGGATCGAAGCCCCCCGGGTCCT... chr.trna40-ArgCCG Sc: 52.20 >>.>>>>..>>>>................................<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<.<<.... GGACTCGTTGCACAGCCtGGAcA......................GTGCGGGCGGCTTCGGACCGCCAG...........GtCGAGGGATCGAAGCCCTCCGAGCCCT... chr.trna23-ArgTCG Sc: 54.47 >>>>>>>..>>>>................................<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCTCGTGGCGCAGTGcCGC.AtctgcggcgcgcagcatggataGCGCGGTAGCCTCCTAAGTTACAG...........GtCGAGGGATCGAAGCCCTCCGAGCCCG... chr.trna16-ArgCCT Sc: 59.04 >>>>>>>..>>>>................................<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCTGTAGCTCAGCAtGGAtA......................GAGTGTTGGACTTCTAATCCAATG...........GtCAAGAGATCGAAGCTCTTCAGGCCCG... chr.trna44-ArgTCT Sc: 60.80

Asn tRNAs

>>>>>>>..>>>>.........<<<<..>>>>.......<<<<.................>>>>>.......<<<<<<<<<<<<.... GCCGCCCTAGCTCAGCCcGGTAGAGCGTCGGACTGTTAATCCGTTG...........GtCGCCAGTTCAAGTCTGGTGGGCGGCGCCA chr.trna11-AsnGTT Sc: 73.53

Asp tRNAs

>>>>>>>..>>.>...........<.<<.>>>>>.......<<<<<...............>>>.>.......<.<<<<<<<<<<.... GCCCTTGTAGTATAGCCcGGTctAGAATTCGGCCCTGTCACGGCTGAG...........ACGCGTGTTCAAATCCCGCCGAGGGCGCCA chr.trna29-AspGTC Sc: 64.16

Cys tRNAs

>>>>>>>..>>>..........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGTGAGATGGCAGAGCGGTT.ATGCGTGGGCCTGCAAAGCCTATC...........TaTGGGGGTTCAACTCCCTCTCTCACCT... chr.trna2-CysGCA Sc: 39.47

Gln tRNAs

>>>>>>>..>>>>...........................<<<<.>>>>>......................<<<<<...............>>>>>.......<<<<<<<<<<<<.... AGCCCGATAGTCTAGTCtGGCcAaaccttacggggccaa.GGATTCCGCGCTCTGGatctagcgagtagacACGCGGAG...........ACGGCAGTTCGAATCTGCCTCGGGCTA... chr.trna45-GlnCTG Sc: 54.93 >>>>>>>..>>>>...........................<<<<.>>>>>......................<<<<<...............>>>>>.......<<<<<<<<<<<<.... AGCCCGGTGGTGTAGC..GGA.A.................GCATGGGGGCCTTTGG...............AGCCCCCG...........ACCCCAGTTCGAATCTGGGCCGGGCTA... chr.trna24-GlnTTG Sc: 66.53

Glu tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>......................<<<<<<<<<<<<.... GCTCCTGTGGTGTAGTCcGGCcaAGCATACTGCCCTCTCAAGGCAGTG...........AtCCCGGGTTCAAAT...............CCCGGCGGGAGCA... chr.trna35-GluCTC Sc: 77.81 >>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>......................<<<<<<<<<<<<.... GCTCCTGTGGTGTAGTCcGGTcaAGCATACTGCCCTTTCAAGGCAGTG...........AtCCCGGGTCCAAATtcgacagatggaagtCCCGGCGGGAGCACCA chr.trna30-GluTTC Sc: 54.97

Gly tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCAGTCATAGTATAGTTtGGTtATTATTCCAGCTTGCCAAGTTGGTG...........A.CCCGGGTCCAAATCCCGGTGACTGCA... chr.trna36-GlyGCC Sc: 58.97 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>.>.......<.<<<<<<<<<<.... GCGGAGTTAGTCCAGCCcGGT.AGGACGTCAGCTTCCCAAGCTGAAG...........GtCGCGTGTTCAAATCCCGCACTCCGCA... chr.trna25-GlyCCC Sc: 74.82 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCAGTCATAGTATAGCTtGGTcAGTATACGGGGTTTCCAACCCTGCG...........A.CGCGGGTTCAAATCCCGCTGACTGCA... chr.trna26-GlyTCC Sc: 69.45

His tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<...............>>>.>.......<.<<<<<<<<<<.... GCCTCCGTCGTATAGTGGCtA.GTATAGGGGACTGTGGATCCCCGG...........ACGGGTGTTCGATTCCCCCCGGAGGCC... chr.trna31-HisGTG Sc: 46.39

Ile tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCTCGTAGCTCAGCTtGGCtGGAGCGTTCGACTGATAATCGAAAG...........GtCATGAGTTCGAATCTCATCGGGCCCA... chr.trna12-IleGAT Sc: 72.57

Leu tRNAs

>>>>>>>..>>>..............<<<.>.>>>>.................................................<<<<<..>>>.............<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGTGTAGCCCAGCCtGGTca.AAGGCGC.TAGCTTGAGG..........................................GGCTAGT.CTC..TTAG.......GAGTtCGTGGGTTCAAATCCCAT.CGCCCGCA... chr.trna32-LeuGAG Sc: 62.58 >>>>>>>..>>>..............<<<.>.>>>>.................................................<<<<<...>>>...........<<<....>>>>>.......<<<<<.<<<<<<<.... GCGGGAGTCGCCCAGCCcGGTca.AAGGCGT.AAGGTTCAGG..........................................TCCTTATCTCTCA.........GGAGTA.CGTGGGTTCGAATCCCAT.CTCCCGCA... chr.trna21-LeuCAG Sc: 50.22 >>>>>>>..>>>..............<<<.>.>>>>.................................................<<<<<..>>>.............<<<...>>>>>.......<<<<<.<<<<<<<.... GCGGGGGTTGCCGAGCCtGGTca.AAGGCGC.AGGGCTTAGG..........................................ACCCTGTCTTC...TAG.......GAGTcCGCGGGTTCGAATCCCGC.CTCCCGCACCA chr.trna42-LeuTAG Sc: 70.68 >>>>>>>..>>>..............<<<.>.>>>>.................................................<<<<<..>>>>...........<<<<...>>>>>.......<<<<<.<<<<<<<.... GCAGGGGTATCGAAGCCcGGTca.ACCGAGA.AGGACTCAAGatcacggtgggtg.............................ATCCTTT.CCCCC.........AGGGGTtCGTGGGTTCAAATCCCAC.CTCCTGCACCA chr.trna15-LeuCAA Sc: 54.40 >>>>>>>...>................<..>.>.>>.................................................<<.<<........................>>>>>.......<<<<<.<<<<<<<.... GGAGGAGTAATCAAGCCtGGCcaaAGCAAGCgCAAGCTTTTGgagatgcaggacttaagatcaaaaaaataggggatcctgtctCCTAGGGG...................TtCGTGGGTTCAAATCCCAC.CTCCTCCA... chr.trna38-LeuTAA Sc: 58.03

Lys tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGTTTATGGCTCAGCCaGGTAGAGCACCGGACTCTTAATCCGGCT...........GtCAGGGGTTCGAATCCCCTTAAACCCG... chr.trna22-LysCTT Sc: 73.41 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGTCTGTGGCGCAGCCaGGTAGCGCACCGGACTTTTAATCCGGCT...........GtCGTGGGTTCGAATCCCACTAGACCCA... chr.trna18-LysTTT Sc: 77.86

Met tRNAs

>>>>>>>..>>>>.........................<<<<.>>>>..........................<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGGGATAGCTCAGCC.G...............GTcAGAGTGCCAGCTTTCTCcaaaggcaagactcataATCTGGAG...........GtCGTGGGATCAAAACCCACTCCCGGCA... chr.trna4-MetCAT Sc: 73.45 >>>>>>>..>>>>.........................<<<<.>>>>>........................<<<<<................>>>>>.......<<<<<<<<<<<<.... AGCGGGGTGGGGAAGTCaGacgcatgcgggcaaaGTcATCCCGGCGGGCTCATA.................ACCCGCAG...........AtCAGTAGTTCAAATCTACTCCCCGCTA... chr.trna46-MetCAT Sc: 67.60 GGGCCCGTAACTCAGCCtG...............GT.AGAGTAACCGACTCATA.................ATCGGTGA...........GcCGTGAGATCAAAGCTCGCCGGGCCCA... chr.trna17-MetCAT Sc: 58.86

Phe tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>.>.......<.<<<<<<<<<<.... GCCAGGGTAGCTCAGCCtGGGAGAGCACTCGGCTGAAGACCGAGCT...........GtCGCGCGTTCAAATCCCGCCCCTGGCACCA chr.trna5-PheGAA Sc: 76.96

Pro tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGACCGTCGTCTAGATtGGCcATGATGCTAGCCTGGGGTGCTAGAG...........GtCGCAGGTTCAAATCCTGCCGGTCCCACCA chr.trna20-ProGGG Sc: 71.35 >>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGACGTGGGTTAGCTtGGT.ATACTGCCAGCCTCGGGCGCTGGAG...........AtCATGGGTTCGAATCCCATCGTCCCCA... chr.trna19-ProCGG Sc: 77.41 >>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGACCGTAGTCTAGCTtGGC.ATGATTCTGGTTTTGGGTACCAGAG...........GcCGCAGGTTCAAATCCTGCCGGTCCCACCA chr.trna34-ProTGG Sc: 71.53

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.....................<<<<<..>>>.........<<<...>>>>>.......<<<<<<<<<<<<.... GCCGGGGTCGCCTAGCCtGGTA.GGGCGCGCGCCTGGAAatcagcgaccatacAGCGCGTTCTCGCAA.....GGGAtCGGGAGTTCGAATCTCCCTCCCGGCGCCA chr.trna39-SerGGA Sc: 61.46 >>>>>>>..>>>............<<<.>>>>>.....................<<<<<..>>>.........<<<...>>>>>.......<<<<<<<<<<<<.... GCCAGGTTAGCCAAGT..GGTA.CGGCGGCCGCCTCGAA..............AGCGGCTGCGCGCAA.....GCGCtCAGGGGTTCGAATCCCTTACCTGGCG... chr.trna6-SerCGA Sc: 63.68 >>>>>>>..>>>............<<<.>>>>>.....................<<<<<..>>>.........<<<...>>>>>.......<<<<<<<<<<<<.... GCAGAGGTCGCCTAGCCcGGCA.TGGCGCGGGCCTTGAG..............AGCCTGTGCGAGCAA.....TCGCaCGGGGGTTCAAATCCCCCTCTCTGCGCCA chr.trna27-SerTGA Sc: 67.01 >>>>>>>..>>>>..........<<<<.>>>>>.....................<<<<<...>...........<....>>>>>.......<<<<<<<<<<<<.... GCAGGGGTCACCTAGCCtGGTA.GGGTGTGGGACTGCTA..............ATTCCATGTTCGCAAg....AACA.CGGGGGTTCGAATCCCCCTCCCTGCGCCA chr.trna1-SerGCT Sc: 55.49

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCTTCGATAGCTCAGCCtGGTAGAGCGTTACCTTGGTAAGGTAAAG...........GtCGTGGGTTCGGATCCCACTCGAAGCT... chr.trna9-ThrGGT Sc: 69.75 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCTCGGTGGCTCAGACcGGCAGAGCAAACGCCTCGTAAGCGTTAG...........GcCGTGGGTTCAAATCCCACCCGAGGCTCCA chr.trna13-ThrCGT Sc: 78.72 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCAATGTAGCTCAGCCtGGTAGAGCATTCGCCTTGTAAGCGAAAG...........GtCGAGGGTTCAAAGCCCTCCATTGGCT... chr.trna10-ThrTGT Sc: 71.41

Trp tRNAs

>>>>>>>..>>>>.........<<<<.>>.>................................................................................<.<<................>>>>>.......<<<<<<<<<<<<.... GGGGTCGTAGCCTAGCCtGGTAGGGCGACAGTCTGCGAaattaccgccaagggctccagaggtctgtaccaagctggctgattgatgatgtaagtttggagctgcagagACCCGTAG...........GtCGCCGGTTCGATTCCGGTCGGCCCCA... chr.trna3-TrpCCA Sc: 69.15

Tyr tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.....................................................<<<<<................>>>>>.......<<<<<<<<<<<<.... CCCAAGCTAGCTCAGCCtGGTAGAGCTTCCGGCTGTAGatgtcggccttggctgaccgtataacagcatatcaggcatacagagACCGGGTT...........GtCGAAGGTTCAATTCCTTCGCTTGGGACCA chr.trna14-TyrGTA Sc: 50.54

Val tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>..........................<<<<<................>.>>>.......<<<.<<<<<<<<.... GGGCCGGTAGTCTAGT..GGT.A.GGATACCGCCTCGACA...................CGGCGGTG...........AtCGTGAGTTCAAATCTCTCTCGGCCCACCA chr.trna33-ValGAC Sc: 63.51 >>>>>>>..>>>>...........<<<<..>>>............................<<<.................>>>>>.......<<<<<<<<<<<<.... GGACCGGTTGTCTAGT..GGTcA.GGATGACGCACTCACActgcgtaagggcatctgccCCGCGACG...........GtCATGGGTTCGACCCCCATCCGGTCCA... chr.trna37-ValCAC Sc: 62.54 >>>>>>>..>>>.............<<<.>>>>>..........................<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCTCATAGTCCAGTTcGGTcA.TGACGTCGCCCTTACA...................CGGCGAAG...........AtCCGGGGTTCAAATCCCCGTGGGCCCA... chr.trna8-ValTAC Sc: 75.75

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.