GtRNAdb

tRNAscan-SE Analysis of Rhodopseudomonas palustris BisB5

>> Main Overview
>> tRNAs by Isotype
>> tRNAs by Locus
>> Secondary Structures
>> tRNA Alignments
>> FASTA Seqs
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>> Analysis Notes
>> 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

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCATAGCTCAGCTGGGAGAGCGCTTGCATGGCATGCAAGAG...........GtCGGCGGTTCGATCCCGCCTGGCTCCACCA Rhodopseudomonas_palustris_BisB5.trna50-AlaGGC Sc: 87.23 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCATAGCTCAGCTGGGAGAGCGCGTCGTTCGCAATGACGAG...........GtCGGCGGTTCGATCCCGCCTGGCTCCACCA Rhodopseudomonas_palustris_BisB5.trna43-AlaCGC Sc: 84.51 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>.>>>.......<<<.<<<<<<<<.... GGGGCCATAGCTCAGCTGGGAGAGCGCGTGCTTTGCAAGCATGAG...........GtCGTCGGTTCGATCCCGTCTGGCTCCACCA Rhodopseudomonas_palustris_BisB5.trna47-AlaTGC Sc: 86.35 GGGGCCATAGCTCAGCTGGGAGAGCGCGTGCTTTGCAAGCATGAG...........GtCGTCGGTTCGATCCCGTCTGGCTCCACCA Rhodopseudomonas_palustris_BisB5.trna23-AlaTGC Sc: 86.35

Arg tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCCCGTAGCTCAGCTGGAtAGAGCACCAGACTACGAATCTGGGG...........GtCAGAGGTTCGAATCCTTTCGGGCGCGCCA Rhodopseudomonas_palustris_BisB5.trna51-ArgACG Sc: 92.98 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCACCCGTAGCTCAGCTGGAtAGAGCGTTGCCCTCCGAAGGCAAAG...........GtCACACGTTCGAATCGTGTCGGGTGCGCCA Rhodopseudomonas_palustris_BisB5.trna42-ArgCCG Sc: 86.37 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGCTCGTAGCTCAGCTGGAtAGAGCATCGGATTTCGATTCCGAGG...........GcCGGAGGTTCGAATCCTTCCGAGCGCGCCA Rhodopseudomonas_palustris_BisB5.trna15-ArgTCG Sc: 85.57 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGTCCCGTAGCTCAGCCGGAtAGAGCGGCGGTTTCCTAAACCGTAG...........GtCGGATGTTCGAGTCATCCCGGGATCGCCA Rhodopseudomonas_palustris_BisB5.trna49-ArgCCT Sc: 77.28 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGTCCCATAGCTCAACTGGAtAGAGTAGCGGATTTCTACTCCGCGG...........GtTGCAGGTTCGAATCCTGCTGGGATCGCCA Rhodopseudomonas_palustris_BisB5.trna36-ArgTCT Sc: 80.78

Asn tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... TCCCTGGTAGCTCAGTGGTA.GAGCAACCGGCTGTTAACCGGTTG...........GtCGCTGGTTCGAATCCGGCCCGGGGAGCCA Rhodopseudomonas_palustris_BisB5.trna35-AsnGTT Sc: 86.74

Asp tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGGAGTAGCTCAGTTGGTtAGAGCGCCGGCCTGTCACGCCGGAG...........GtCGCGGGTTCGAGCCCCGTCTCTCGCGCCA Rhodopseudomonas_palustris_BisB5.trna33-AspGTC Sc: 97.02

Cys tRNAs

>>>>>>>..>>>..........<<<..>>>>.......<<<<.................>>>>>.......<<<<<.<<<<<<<.... GGCCACGTGGCGGAGTGGTT.ACGCGCCGGTCTGCAAAACCGTTT...........A.CTCGGGTTCGATTCCCGA.CGTGGCCTCCA Rhodopseudomonas_palustris_BisB5.trna12-CysGCA Sc: 65.24 >>>>>>>..>>>..........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GGCCCCGTGGCGGAGTGGAT.ACGCAAAGGACTGCAAATCCTTGC...........AgCGCTGGTTCGAATCCAGCgCGGGGCCTCCA Rhodopseudomonas_palustris_BisB5.trna40-CysGCA Sc: 59.10

Gln tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... TGGGGAATGGTGTAACGGTA.GCACAACAGACTCTGACTCTGTTT...........G.TCTAGGTTCGAATCCTAGTTCCCCAGCCA Rhodopseudomonas_palustris_BisB5.trna16-GlnCTG Sc: 70.05 >>>>>>>..>>>..........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... TGGGGCGTAGCCAAGCGGTA.AGGCAGGGGATTTTGATTCCCCCA...........TgCGGAGGTTCGATCCCTCCCGCCCCAGCCA Rhodopseudomonas_palustris_BisB5.trna20-GlnTTG Sc: 69.86

Glu tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCTCCCTTCGTCTAGCGGTtA.GGACGCGGCCCTCTCAAGGCTGAA...........ACAGGGGTTCGATTCCCCTAGGGAGCGCCA Rhodopseudomonas_palustris_BisB5.trna45-GluCTC Sc: 68.86 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GCTCCCTTCGTCTATCGGTtA.GGACGCCACCCTTTCACGGTGGAG...........AGAGCGGTTCGATTCCGCTAGGGAGCGCCA Rhodopseudomonas_palustris_BisB5.trna37-GluTTC Sc: 60.15

Gly tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGGTGTAGCTCAGGGGTA.GAGCACAACCTTGCCAAGGTTGGG...........GtCGAGGGTTCGAATCCCTTCGCCCGCTCCA Rhodopseudomonas_palustris_BisB5.trna2-GlyGCC Sc: 88.17 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGGCGTAGTTCAATGGTA.GAACGGCAGCTTCCCAAGCTGCAT...........A.CGAGGGTTCGATTCCCTTCGCCCGCTCCA Rhodopseudomonas_palustris_BisB5.trna4-GlyCCC Sc: 80.62 >>>>>>>..>>>>........<<<<..>>>>.......<<<<.................>>>>>.......<<<<<<<<<<<<.... GCGGGTGTAGCTCAATGGTA.GAGCAGCAGCCTTCCAAGCTGAAT...........A.CGAGGGTTCGATTCCCTTCACCCGCTCCA Rhodopseudomonas_palustris_BisB5.trna29-GlyTCC Sc: 82.33

His tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCAGTTGTAGCTCAGTTGGTtAGAGCGCCTGTCTGTGGAACAGGAG...........GtCGGTGGTTCGAGCCCACCCAACTGTACCA Rhodopseudomonas_palustris_BisB5.trna7-HisGTG Sc: 90.83

Ile tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCTTGTAGCTCAGTTGGTtAGAGCGCGCGCTTGATAAGCGTGAG...........GtCGGAAGTTCAAGTCTTCCCAGGCCCACCA Rhodopseudomonas_palustris_BisB5.trna46-IleGAT Sc: 93.43 GGGCTTGTAGCTCAGTTGGTtAGAGCGCGCGCTTGATAAGCGTGAG...........GtCGGAAGTTCAAGTCTTCCCAGGCCCACCA Rhodopseudomonas_palustris_BisB5.trna22-IleGAT Sc: 93.43

Leu tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>...........<<..>>>>>.......<<<<<.<<<<<<<.... GCGCTCGTGGCGGAATTGGTaGACGCGCTGCCTTGAGGTGGCAGTGAG.TAAA....ATCGTGGGGGTTCGAGTCCCTC.CGAGCGCACCA Rhodopseudomonas_palustris_BisB5.trna31-LeuGAG Sc: 69.13 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.......<<<<..>>>>>.......<<<<<.<<<<<<<.... GCCCAGGTGGCGGAATTGGTaGACGCGCTGGCTTCAGGTGCCAGTGGCTTCAC...GGCCGTGAAGGTTCGAGTCCTTT.CCTGGGCACCA Rhodopseudomonas_palustris_BisB5.trna1-LeuCAG Sc: 75.87 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>.........<<<..>>>>>.......<<<<<.<<<<<<<.... GCGGGCGTGGCGGAACTGGTaGACGCGCTGGATTTAGGTTCCAGTGAC.GAAA....GTCGTGGGGGTTCGAGTCCCTC.CGCCCGCACCA Rhodopseudomonas_palustris_BisB5.trna32-LeuTAG Sc: 78.45 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>.........<<<..>>>>>.......<<<<<.<<<<<<<.... GCCCCTGTGGCGGAACTGGTaGACGCGCTCGACTCAAAATCGAGTTCC.GCAA....GGAGTGCTGGTTCGATTCCGGC.CAGGGGCACCA Rhodopseudomonas_palustris_BisB5.trna48-LeuCAA Sc: 77.17 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.......<<<<..>>>>>.......<<<<<.<<<<<<<.... GCGGACGTGGCGGAACTGGTaGACGCAAGGGACTTAAAATCCCTCGATGGCAA...CGTCGTGCGGGTTCGACCCCCGC.CGTCCGCACCA Rhodopseudomonas_palustris_BisB5.trna26-LeuTAA Sc: 75.66

Lys tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGCATAGCTCAGTTGGTAGAGCAGCTGACTCTTAATCAGCGG...........GtCCCAGGTTCGAGCCCTGGTGCGCCCACCA Rhodopseudomonas_palustris_BisB5.trna9-LysCTT Sc: 97.77 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GAGCGCGTAGCTCAGACGGTAGAGCACGTGACTTTTAATCATGGG...........GtCGAGGGTTCGAGTCCCTCCGCGCTCACCA Rhodopseudomonas_palustris_BisB5.trna34-LysTTT Sc: 91.05

Met tRNAs

>>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGCGGGGTAGCTCAGCT.GGTtA.GAGCACGGGAATCATAATCCTGGG...........GtCGGGGGTTCGAGTCCCTCTCCCGCTACCA Rhodopseudomonas_palustris_BisB5.trna24-MetCAT Sc: 89.01 .>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<..... CGCGGGGTGGAGCAGCCcGGT.A.GCTCGTCAGGCTCATAACCTGAAG...........GtCATAGGTTCAAATCCTATCCCCGCAACCA Rhodopseudomonas_palustris_BisB5.trna8-MetCAT Sc: 83.88 >>>>>>>..>>>>...........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCCTGTAGCTCAAT..GGTtA.GAGCCGGCCGCTCATAACGGTCTG...........GtTCCTGGTTCGAGTCCAGGCGGGCCCACCA Rhodopseudomonas_palustris_BisB5.trna25-MetCAT Sc: 80.37

Phe tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCCAGGTAGCTCAGTTGGTAGAGCATGCGACTGAAAATCGCAGT...........GtCGGTGGTTCGATCCCGCCCCTGGGCACCA Rhodopseudomonas_palustris_BisB5.trna21-PheGAA Sc: 88.73

Pro tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... CGGAGCGTGGCGCAGCCcGGTtAGCGCACTAGTCTGGGAGACTAGGG...........GtCGAAGGTTCAAATCCTTTCGCTCCGACCA Rhodopseudomonas_palustris_BisB5.trna13-ProGGG Sc: 79.64 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... CGGAGTGTGGCTCAGCCcGGT.AGAGCACTGCGTTCGGGACGCAGGG...........GtCGCAGGTTCAAATCCTGCCACTCCGACCA Rhodopseudomonas_palustris_BisB5.trna6-ProCGG Sc: 85.24 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... CGGGGTATAGCGCAGCCtGGT.AGCGCGGCAGTTTTGGGTACTGCAG...........GtCGTTGGTTCGAATCCAGCTGCCCCGACCA Rhodopseudomonas_palustris_BisB5.trna11-ProTGG Sc: 79.83

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>>>>.........<<<<<<...>>>>>.......<<<<<..<<<<<<<.... GGAGAGATGGCCGAGTGGCttA.AGGCGCACGCTTGGAAAGCGTGT.GTGCGG.GAAA....CCGTAC..CGTGGGTTCGAATCCCAC..TCTCTCCGCCA Rhodopseudomonas_palustris_BisB5.trna5-SerGGA Sc: 81.68 >>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>>>>.........<<<<<<...>>>>>.......<<<<<..<<<<<<<.... GGAGAGGTGGCAGAGTGGTcgA.ATGCACCGCACTCGAAATGCGGC.ATAGGT.GCAA....GCCTAT..CGGGGGTTCGAATCCCTC..CCTCTCCGCCA Rhodopseudomonas_palustris_BisB5.trna3-SerCGA Sc: 76.06 .>>>..>......................>>>>.......<<<<...........................>>>>>.......<<<<<..<..<<<..... AGGCTGATA....AATGGG..A.CCCGGACTGACTCTTAATCAGCGG.....................GtCCCAGGTTCGAGCCCTGG..TGCGCCCACCA Rhodopseudomonas_palustris_BisB5.trna10-SerCGA Sc: 34.65 >>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>>>>.........<<<<<<...>>>>>.......<<<<<..<<<<<<<.... GGAAGGGTGGCCGAGTGGTttA.AGGCACCGGTCTTGAAAACCGGC.GTGGGT.GCAA....GCCCAC..CGTGGGTTCGAATCCCAC..CCCTTCCGCCA Rhodopseudomonas_palustris_BisB5.trna39-SerTGA Sc: 83.46 >>>>>>>..>>>............<<<.>>>>>.......<<<<<..>>>>>>>.......<<<<<<<...>>>>>.......<<<<<..<<<<<<<.... GGAGACGTGGCCGAGTGGCtgA.AGGCGGCGGTTTGCTAAACCGTTATAGGGTTGTAA...AGCCCTAT.CGAGGGTTCGAATCCCTC..CGTCTCCGCCA Rhodopseudomonas_palustris_BisB5.trna38-SerGCT Sc: 76.24

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>.>>>.......<<<.<<<<<<<<.... GCTGCCGTAGCTCAGT.GGTA.GAGCACTCCCTTGGTAAGGGAGAG...........GtCGTGAGTTCGATCCTCCCCGGCAGCACCA Rhodopseudomonas_palustris_BisB5.trna18-ThrGGT Sc: 86.11 >>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGCAATAGCTCAGCTGGTA.GAGCACGTCATTCGTAATGACGGG...........GtCGGGGGTTCGAATCCCTCTTGCGGCACCA Rhodopseudomonas_palustris_BisB5.trna44-ThrCGT Sc: 97.39 >>>>>>>..>>>>.........<<<<..>>>>.......<<<<.................>>>>>.......<<<<<<<<<<<<.... GCCGGCGTAGCACAGC.GGTA.GTGCAGCGGTTTTGTAAACCGAAG...........GtCGGGAGTTCGATCCTCTCCGCCGGCACCA Rhodopseudomonas_palustris_BisB5.trna27-ThrTGT Sc: 83.07

Trp tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... AGGAGTGTAGCTCAATTGGTAGAGCACCGGTCTCCAAAACCGGGG...........GtCGCAGGTTCGAGCCCTGCCACTCCTGCCA Rhodopseudomonas_palustris_BisB5.trna30-TrpCCA Sc: 91.15

Tyr tRNAs

>>>>>>>...>>>...........<<<.>>>>>.......<<<<<.>>>........<<<...>>>>>.......<<<<<.<<<<<<<.... GGGGGAGTGtCCCGAGTGGCaA.AGGGAGCTGACTGTAAATCAGCCGCCTTAT....GGCTtCGCAGGTTCGAGTCCTGC.CTCCCCCACCA Rhodopseudomonas_palustris_BisB5.trna28-TyrGTA Sc: 75.58

Val tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGCGTAGCTCAGC.GGG.A.GAGCACCTCGTTGACATCGAGGGG...........GtCACAGGTTCGATCCCTGTCGCGCCCACCA Rhodopseudomonas_palustris_BisB5.trna19-ValGAC Sc: 89.95 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGCATAGCTCAGC.GGG.A.GAGCGTTCCCTTCACACGGGAGAG...........GtCCAAGGTTCGATCCCTTGTGCGCCCACCA Rhodopseudomonas_palustris_BisB5.trna17-ValCAC Sc: 81.20 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGGCTAGCTCAGCTGGTtA.GAGCATCTCGTTTACACCGAGAGG...........GtCGGGAGTTCGAATCTCTCGCCGCCCACCA Rhodopseudomonas_palustris_BisB5.trna14-ValTAC Sc: 92.05

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.