GtRNAdb

tRNAscan-SE Analysis of Streptococcus pneumoniae D39

>> 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

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGGCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAG...........GtCAGCGGTTCGATCCCGCTAGGCTCCA... chr.trna37-AlaTGC Sc: 84.64 GGGGCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAG...........GtCAGCGGTTCGATCCCGCTAGGCTCCA... chr.trna26-AlaTGC Sc: 84.64 GGGGCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAG...........GtCAGCGGTTCGATCCCGCTAGGCTCCA... chr.trna2-AlaTGC Sc: 84.64 GGGGCCTTAGCTCAGCTGGGAGAGCGCCTGCTTTGCACGCAGGAG...........GtCAGCGGTTCGATCCCGCTAGGCTCCA... chr.trna13-AlaTGC Sc: 84.64

Arg tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCACCCTTAGCTCAACTGGAtA.GAGTACCTGACTACGAATCAGGCG...........GtTAGAGGTTCGACTCCTCT.AGGGTGCA... chr.trna45-ArgACG Sc: 74.41 GCACCCTTAGCTCAACTGGAtA.GAGTACCTGACTACGAATCAGGCG...........GtTAGAGGTTCGACTCCTCT.AGGGTGCA... chr.trna34-ArgACG Sc: 74.41 >>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... CCACCCTTAGTGTAAT.GGAtA.TCACGTAAGATTCCGGTTCTTGAG...........A.TGGGGGTTCGATTCCCTC.AGGGTGGA... chr.trna57-ArgCCG Sc: 50.72 >>>>>>>..>>>............<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCTCCCTTAGTTCAAT.GGAtA.TAACAACTCCCTCCTAAGGAGTA............GtTGCAGGTTCGATTCCTGC.AGGGGGCA... chr.trna56-ArgCCT Sc: 65.78 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GGTCTCATAGCTCAGCTGGAtA.GAGCATTCGCCTTCTAAGCGAACG...........GtCGCAGGTTCGAATCCTGC.TGGGATCA... chr.trna9-ArgTCT Sc: 80.57

Asn tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... TCCGCCATAGCTCAGTTGGTaGTAGCGCATGACTGTTAATCATGAT...........GtCGTAGGTTCGAGTCCTACTGGCGGAG... chr.trna3-AsnGTT Sc: 76.37 TCCGCCATAGCTCAGTTGGTaGTAGCGCATGACTGTTAATCATGAT...........GtCGTAGGTTCGAGTCCTACTGGCGGAG... chr.trna11-AsnGTT Sc: 76.37

Asp tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGTCCCGTAGTGTAGCGGTtA.TCACGTCGCCCTGTCACGGCGAAG...........AtCGCGGGTTCGATTCCCGTCGGGACCG... chr.trna39-AspGTC Sc: 73.97 GGTCCCGTAGTGTAGCGGTtA.TCACGTCGCCCTGTCACGGCGAAG...........AtCGCGGGTTCGATTCCCGTCGGGACCG... chr.trna28-AspGTC Sc: 73.97

Cys tRNAs

>>>>>>>..>>>..........<<<..>>>>.......<<<<................>.>>>.......<<<.<.<<<<<<<.... GGCGGTATAGCCAAGTGGTA.AGGCACGGCTCTGCAAAAGCTTG...........AtCGTCGGTTCAAATCCGTC.TACCGCCT... chr.trna8-CysGCA Sc: 60.11

Gln tRNAs

>>>>>>>..>>>..........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... TGGGGTATAGCCAAGCGGTA.AGGCAAGGGACTTTGACTCCCTCA...........TgCGTTGGTTCGAATCCAGCTACCCCAG... chr.trna5-GlnTTG Sc: 64.56 TGGGGTATAGCCAAGCGGTA.AGGCAAGGGACTTTGACTCCCTCA...........TgCGTTGGTTCGAATCCAGCTACCCCAG... chr.trna23-GlnTTG Sc: 64.56

Glu tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... GGTCCGTTGGTCAAGGGGTtA.AGACACCGCCTTTTCACGGCGGTA...........ACACGGGTTCGAATCCCGTACGGACTA... chr.trna36-GluTTC Sc: 64.66 GGTCCGTTGGTCAAGGGGTtA.AGACACCGCCTTTTCACGGCGGTA...........ACACGGGTTCGAATCCCGTACGGACTA... chr.trna25-GluTTC Sc: 64.66 GGTCCGTTGGTCAAGGGGTtA.AGACACCGCCTTTTCACGGCGGTA...........ACACGGGTTCGAATCCCGTACGGACTA... chr.trna12-GluTTC Sc: 64.66 GGTCCGTTGGTCAAGGGGTtA.AGACACCGCCTTTTCACGGCGGTA...........ACACGGGTTCGAATCCCGTACGGACTA... chr.trna10-GluTTC Sc: 64.66 GGTCCGTTGGTCAAGGGGTtA.AGACACCGCCTTTTCACGGCGGTA...........ACACGGGTTCGAATCCCGTACGGACTA... chr.trna1-GluTTC Sc: 64.66

Gly tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCGAACGTAGTTCAGTGGTA.GAACACCACCTTGCCAAGGTGGGG...........GtCGCGGGTTCGAATCCCGT.CGTTCGCT... chr.trna43-GlyGCC Sc: 83.78 GCGAACGTAGTTCAGTGGTA.GAACACCACCTTGCCAAGGTGGGG...........GtCGCGGGTTCGAATCCCGT.CGTTCGCT... chr.trna32-GlyGCC Sc: 83.78 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<<<.... GCGGGTGTAGTTTAGTGGTA.AAACTACAGCCTTCCAAGCTGTT............GtCGCGAGTTCGATTCTCGT.CACCCGCT... chr.trna52-GlyTCC Sc: 71.92 GCGGGTGTAGTTTAGTGGTA.AAACTACAGCCTTCCAAGCTGTT............GtCGCGAGTTCGATTCTCGT.CACCCGCT... chr.trna15-GlyTCC Sc: 71.92

His tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCGGGTGTGGTGAAGTGGTtA.ACACACCAGATTGTGGCTCTGGCA...........TgCGTGGGTTCGATCCCCATCACTCGCC... chr.trna22-HisGTG Sc: 59.85

Ile tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGCGCGTAGCTCAGGTGGTtAGAGCGCACGCCTGATAAGCGTGAG...........GtCGGTGGTTCGAGTCCACTCGTGCCCA... chr.trna53-IleGAT Sc: 86.72 GGGCGCGTAGCTCAGGTGGTtAGAGCGCACGCCTGATAAGCGTGAG...........GtCGGTGGTTCGAGTCCACTCGTGCCCA... chr.trna16-IleGAT Sc: 86.72

Leu tRNAs

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.............<<<<..>>>>>.......<<<<<.<<<<<<<.... GCGGGGATGGCGGAATTGGCaGACGTGCAGGACTAAGGATCCTGTGACCGCT.......TTAGGTCGTGAGGGTTCAAGTCCCTC.TCTCCGCA... chr.trna55-LeuAAG Sc: 54.82 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>...............<<<..>>>>>.......<<<<<.<<<<<<<.... GCGGGTTTGGCGGAATTGGCaGACGCACCAGATTTAGGATCTGGCGCT....TAAC.......GGCGTGGGGGTTCAAGTCCCTT.AACCCGCA... chr.trna41-LeuTAG Sc: 68.24 GCGGGTTTGGCGGAATTGGCaGACGCACCAGATTTAGGATCTGGCGCT....TAAC.......GGCGTGGGGGTTCAAGTCCCTT.AACCCGCA... chr.trna30-LeuTAG Sc: 68.24 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.............<<<<..>>>>>.......<<<<<.<<<<<<<.... GCCGGCGTGGCGGAATTGGCaGACGCGCTGGACTCAAAATCCAGTGTCC...GCAA......GGACGTGCCGGTTCGACCCCGGC.CGCCGGTA... chr.trna24-LeuCAA Sc: 70.28 >>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>>...........<<<<<..>>>>>.......<<<<<.<<<<<<<.... GCCGGGGTGGCGGAACTGGCaGACGCACAGGACTTAAAATCCTGCGATTG..GTAA.....CGATCGTACCGGTTCGATTCCGGT.CCTCGGCA... chr.trna44-LeuTAA Sc: 68.91 GCCGGGGTGGCGGAACTGGCaGACGCACAGGACTTAAAATCCTGCGATTG..GTAA.....CGATCGTACCGGTTCGATTCCGGT.CCTCGGCA... chr.trna33-LeuTAA Sc: 68.91

Lys tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCTCCTTAGCTCAGCTGGCAGAGCAGCGGACTCTTAATCCGTGG...........GtCACAGGTTCGATCCCTGTAGGGGGCA... chr.trna7-LysCTT Sc: 82.06 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GACTCGTTAGCTCAGTTGGTAGAGCAATTGACTTTTAATCAATGG...........GtCACTGGTTCGAGCCCAGTACGGGTCA... chr.trna40-LysTTT Sc: 82.17 GACTCGTTAGCTCAGTTGGTAGAGCAATTGACTTTTAATCAATGG...........GtCACTGGTTCGAGCCCAGTACGGGTCA... chr.trna29-LysTTT Sc: 82.17

Met tRNAs

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGACCTTTAGCTCAGCT.GGTtAGAGCTCTCGGCTCATAACCGAGTG...........GtCGTAGGTTCAAGTCCTACAAGGTCCA... chr.trna48-MetCAT Sc: 86.67 .>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<..... CGCGGGATGGAGCAGCTcGGT.AGCTCGTCGGGCTCATAACCCGAAG...........GtCGTAGGTTCAAATCCTGCTCCCGCAA... chr.trna50-MetCAT Sc: 77.60 CGCGGGATGGAGCAGCTcGGT.AGCTCGTCGGGCTCATAACCCGAAG...........GtCGTAGGTTCAAATCCTGCTCCCGCAA... chr.trna18-MetCAT Sc: 77.60 >>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGCGGTGTAGCTCAGCT.GGCtAGAGCGTCCGGTTCATACCCGGGAG...........GtCGGGGGTTCGATCCCCTTCGCCGCTA... chr.trna47-MetCAT Sc: 76.98

Phe tRNAs

>>>.>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<.<<<.... GGCTCGGTAGCTCAGTTGGTAGAGCAATGGATTGAAGCTCCATGT...........GtCGGCGGTTCGATTCCGTCTCGCGCCA... chr.trna51-PheGAA Sc: 75.06 GGCTCGGTAGCTCAGTTGGTAGAGCAATGGATTGAAGCTCCATGT...........GtCGGCGGTTCGATTCCGTCTCGCGCCA... chr.trna19-PheGAA Sc: 75.06

Pro tRNAs

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... CGGGAAGTAGCTCAGCTtGGTAGAGTACTTGGTTTGGGACCAAGGT...........GtCGCAGGTTCGAATCCTGTCTTCCCGA... chr.trna46-ProTGG Sc: 80.16 CGGGAAGTAGCTCAGCTtGGTAGAGTACTTGGTTTGGGACCAAGGT...........GtCGCAGGTTCGAATCCTGTCTTCCCGA... chr.trna35-ProTGG Sc: 80.16

SeC tRNAs

Ser tRNAs

>>>>>>>..>>>..............<<<.>>>>>.......<<<<<..>.>>.........<<.<..>>>>>.......<<<<<..<<<<<<<.... GGAAGATTACTCAAGA..GGCttA.AGAGGCCGTGTTGGAAACGCGGT.AGGCGTGTAA.TAGCGTGCGTGGGTTCGAATCCCAT..GTCTTCCG... chr.trna58-SerGGA Sc: 45.29 >>>>>>>..>>>..............<<<.>>>>>.......<<<<<..>.>>.>.....<.<<.<..>>>>>.......<<<<<..<<<<<<<.... GGAGGATTACCCAAGTCcGGCtgA.AGGGAACGGTCTTGAAAACCGTC.AGGCGTGTAA.AAGCGTGCGTGGGTTCGAATCCCAC..ATCCTCCT... chr.trna49-SerTGA Sc: 61.73 GGAGGATTACCCAAGTCcGGCtgA.AGGGAACGGTCTTGAAAACCGTC.AGGCGTGTAA.AAGCGTGCGTGGGTTCGAATCCCAC..ATCCTCCT... chr.trna17-SerTGA Sc: 61.73 >>>>>>>..>>>..............<<<.>>>>>.......<<<<<...>>>>>.....<<<<<...>>>>>.......<<<<<..<<<<<<<.... GGAGAATTACTCAAGA..GGCtgA.AGAGGACGGTTTGCTAAATCGTTAGGTCGGGTAA.CTGGCG.CAAGGGTTCGAATCCCTT..ATTCTCCG... chr.trna54-SerGCT Sc: 56.13

Sup tRNAs

Thr tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCTGATTTAGCTCAGTTGGCAGAGCGCATCCATGGTAAGGATGAG...........GtCGCCGGTTCAATCCCGGCAATTAGCA... chr.trna6-ThrGGT Sc: 75.79 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GCCGGCTTAGCTCAGTTGGTAGAGCATCTGATTTGTAATCAGAGG...........GtCGCGTGTTCAAGTCATGTAGCCGGCA... chr.trna42-ThrTGT Sc: 83.52 GCCGGCTTAGCTCAGTTGGTAGAGCATCTGATTTGTAATCAGAGG...........GtCGCGTGTTCAAGTCATGTAGCCGGCA... chr.trna31-ThrTGT Sc: 83.52

Trp tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.... ACGGGCATAGTTTAAAGGTA.GAACTAAGGTCTCCAAAACCTTCA...........GTGTGGGTTCAATTCCTACTGCCCGTG... chr.trna21-TrpCCA Sc: 53.01

Tyr tRNAs

>>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>>.........<<<...>>>>>.......<<<<<.<<<<<<<.... GGAGAGATAGCGAAGAGGCtaA.ACGCGGCGGACTGTAAATCCGCTCCTT.......CGGGTtCGGGGGTTCGAATCCCTC.TCTCTCCA... chr.trna4-TyrGTA Sc: 66.36 GGAAGGGTAGCGAAGAGGCtaA.ACGCGGCGGACTGTAAATCCGCTCCTT.......CGGGTtCGGGGGTTCGAATCCCTC.CCCTTCCA... chr.trna20-TyrGTA Sc: 65.00

Val tRNAs

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.... GGGAGTTTAGCTCAGCTGGGAGAGCATCTGCCTTACAAGCAGAGG...........GtCAGCGGTTCGATCCCGTTAACTCCCA... chr.trna38-ValTAC Sc: 84.84 GGGAGTTTAGCTCAGCTGGGAGAGCATCTGCCTTACAAGCAGAGG...........GtCAGCGGTTCGATCCCGTTAACTCCCA... chr.trna27-ValTAC Sc: 84.84 GGGAGTTTAGCTCAGCTGGGAGAGCATCTGCCTTACAAGCAGAGG...........GtCAGCGGTTCGATCCCGTTAACTCCCA... chr.trna14-ValTAC Sc: 84.84

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.