Genomic tRNA Database: Plasmodium falciparum (Oct 2007)

tRNAscan-SE Analysis of Plasmodium falciparum (Oct 2007)

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>> Secondary Structures

>> tRNA Alignments

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>> Analysis Notes

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


>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GGGCGACTAGCTCAAGTGGTA.GAGCGCTCGCTTAGCATGCGAGAG...........GtACGGGGATCGATACCCCGGTCGTCCA chr7.trna7-AlaAGC Sc: 65.16  


>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GGGCTAGTAGTGTAGT.GGTA.TCACGTTCGCTTCGCATGCGAAAG...........TtCCCGGGTTCGATTCCCGGCTGGTCCA chr6.trna1-AlaCGC Sc: 77.31  

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GGGCAGGTGGTGTAGT.GGTA.TCACGCTTGATTTGCATTCAAGAG...........GtCCGGGGTTCAATTCCCCGTCTGTCCA chr4.trna3-AlaTGC Sc: 78.45  



Arg tRNAs





>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GACGGCGTAGCCTAAT.GGAtA.AGGCGTCGGTCTTCGGAACCGAAG...........AtTGCGGGTTCGAGTCCCGTCGTCGTTA chr5.trna3-ArgTCG Sc: 66.19  


>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GCCTCTGTGGCGCAATTGGAtA.GCGCGTTGGACTTCTAATCCAAAG...........GcTGCGGGTTCGAATCCCGCCAGGGGTA chr13.trna2-ArgTCT Sc: 81.06  



Asn tRNAs



>>>.>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<.<<<.
GGTTCCGTAGCTCAGTTGGTtAGAGCGTGCGGCTGTTAACCGCAAG...........GtCGTTGGTTCGATCCCAGCCGGTACCG chr4.trna1-AsnGTT Sc: 80.68  



Asp tRNAs



>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.
TCCGAGATAGTATAGTGGCaA.GTATTTCCGCCTGTCACGCGGAAG...........ACCCGGGTTCAATTCCCGGTCTCGGAG chr7.trna2-AspGTC Sc: 69.69  



Cys tRNAs






Gln tRNAs


>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.
GGTTCTGTAGTGTAGTGGTtA.GCACTGCAGACTCTGACTCTGCAA...........ACCTGGGTTCAAATCCCAGCAGAACCT chr2.trna1-GlnCTG Sc: 72.54  

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.
GGTTTCGTAGTGTAGTGGTtA.GCACTGAGGACTTTGAATCCTCCA...........ACCCGGGTTCGAGTCCCGGCGAGACCT chr12.trna3-GlnTTG Sc: 70.90  



Glu tRNAs


>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.
TCCCACGTGGTCTAGT.GGCtA.GGATATTCGGCTCTCACCCGAAAG...........GCCCGGGTTCAATTCCCGGCGTGGGAA chr4.trna4-GluCTC Sc: 81.01  

>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.
TCCCATGTAGTCTAGGCGGTtA.GGATATTCGGCTTTCACCCGAACG...........ACCCGGGTTCGAGTCCCGGCGTGGGAA chr5.trna2-GluTTC Sc: 74.15  



Gly tRNAs





>>>>>>>..>>>...........<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.
GCGTCAATAGTCTAACGGCcA.TGATACCTGCCTTCCAAGCAGGTG...........ACCCGGGTTCGACTCCCGGTTGACGCA chr11.trna1-GlyTCC Sc: 69.10  



His tRNAs






Ile tRNAs


>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GGTCCTATAGCTCAGTTGGTtA.GAGCGTACGGCTAATAACCGTAAG...........GtCGGCGGTTCGAGACCGCCTGGGACCA chr3.trna2-IleAAT Sc: 84.11  


>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GATCCATTAGCTCAGT.GGTtA.GAGCGTCGGTCTTATGTACCGAAG...........GtCGTGGGTTCGAAACCCACATGGATCA chr4.trna5-IleTAT Sc: 81.89  



Leu tRNAs


>>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>..............<<..>>>>>.......<<<<<.<<<<<<<.
GACAGAATGGCCGAGTGGTctA.AGGCGCAACGTTAAGGCCGTTGTCCGA..........AAGGGCGTGGGTTCGAACCCCAC.TTCTGTCA chr7.trna3-LeuAAG Sc: 66.09  


>>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>..............<<..>>>>>.......<<<<<.<<<<<<<.
GACAGAATGGCCGAGCGGTctA.AGGCGCTACAGTCAGATTGTAGTCTG.TAT........AAGGCGTGGGTTCGAATCCCGC.TTCTGTCA chr6.trna3-LeuCAG Sc: 58.06  

>>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>.>..........<.<<..>>>>>.......<<<<<.<<<<<<<.
GTCAGGATGGCCGAGTGGTctA.AGGCGCAGCGTTTAGGCCGCTGTCCGT..........AAGGGCGTGGGTTCGAACCCCAC.TCCTGACA chr5.trna1-LeuTAG Sc: 71.48  

>>>>>>>..>>>............<<<.>>>>>.......<<<<<.>>>>..........<<<<..>>>>>.......<<<<<.<<<<<<<.
GCACGGATGGCTGAGTGGTctA.AAGCGTCAGACTCAAGATCTGATGAACGTAA......GTTCGCATGGGTTCGAACCCCAT.TTCGTGCA chr11.trna2-LeuCAA Sc: 72.42  

>>>>>>>..>>>............<<<.>.>>>.......<<<.<.>>>>..........<<<<..>>>>>.......<<<<<.<<<<<<<.
GCACGGGTGCCCGAGTGGTt.A.AGGGGGTGGACTTAAGATCCTCTGGTCACTA......GACCGCGTGGGTTCGAACCCCAC.CTCGTGCA chr5.trna4-LeuTAA Sc: 70.73  



Lys tRNAs






Met tRNAs


>>>>>>>..>>>>..........<<<<.>>>>.........<<<<................>>>>>.......<<<<<<<<<<<<.
GGGTAATTGGCGCAGTTGGTtA.GCGCGCGGGTCTCATAATCCCGAG...........GtCGTGAGTTCGATCCTCACATTACCCA chr14.trna2-MetCAT Sc: 80.56  
>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
AGCAGCGTAGCTCAGA.GGA.A.GAGTGGGGGGCTCATAACCCCCAG...........GaCCGTGGATCGAAACCACGCGCTGCTA chr13.trna1-MetCAT Sc: 60.25  



Phe tRNAs



>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>.>>.......<<.<<<<<<<<<.
GCCGTGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAG...........GtCCCTGGTTCGATCCCTGGTCACGGCA chr5.trna5-PheGAA Sc: 82.85  



Pro tRNAs


>>>>>>>..>>>..........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GGCTACTTAGTCTAGTGGTA.TGATTCTCTCTTAGGGTGGGAGAG...........GtCCCGGGTTCGATTCCCGGAGTAGCCC chr14.trna1-ProAGG Sc: 73.97  


>>>>>>>..>>>..........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GGCTACTTGATCTAGTGGTA.TGATTCTTGCTTCGGGTGCAAGAC...........GtCCCGGGTTCGATTCCCGGAGTAGCCC chr12.trna1-ProCGG Sc: 70.28  

>>>>>>>..>>>..........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GGCTACTTAGTCTAGTGGTA.TGATTCTCGCTTTGGGTGCGAGAG...........GtCCCGGGTTCAATTCCCGGAGTAGCCC chr13.trna4-ProTGG Sc: 77.73  



SeC tRNAs





Ser tRNAs


>>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.......<<<<..>>>>>.......<<<<<.<<<<<<<.
GACAGTGTGTCCGAGTGGTtA.AGGAGTCAGACTAGAAATCTGGTAGGCTTT....GCCTGCGCAGGTTCGAATCCTGC.CGCTGTCG chr4.trna2-SerAGA Sc: 78.93  


>>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.......<<<<..>>>>>.......<<<<<.<<<<<<<.
GACAGTTTGTCCGAGTGGTtA.AGGAGGTTGACTCGAAATCAACTGGGCTCT....GCCCGCACAGGTTCAAATCCTGT.AGCTGTCG chr13.trna5-SerCGA Sc: 77.78  

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.......<<<<..>>>>>.......<<<<<.<<<<<<<.
GACAGTTTGCCCGAGTGGTtA.AGGGGTTGGACTTGAAATCCAATGAGCTTT....GCTTGCGCAGGTTCGAATCCTGC.AGCTGTCG chr6.trna2-SerTGA Sc: 78.00  


>>>>>>>..>>>...........<<<.>>>>>.......<<<<<.>>>>.......<<<<..>>>>>.......<<<<<.<<<<<<<.
GATAACGTGCCCGAGTGGTtA.AGGGGTTGGACTGCTAATCCAATGGGTTCT....GCCCGCGCAGGTTCGATTCCTGC.CGTTGTCG chr7.trna6-SerGCT Sc: 80.03  



Sup tRNAs






Thr tRNAs




>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GCCATCTTAGCACAGTTGGTA.ATGCGTTTGATTCGTAATCAAAAG...........AtCGTGGGTTCGACTCCCACAGGTGGCT chr13.trna3-ThrCGT Sc: 78.10  

>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GCCACCTTAGCACAGT.GGTA.GTGCGTTGGTCTTGTAAACCAAAG...........GtCGGGAGTTCGATCCTCCCAGGTGGCT chr7.trna5-ThrTGT Sc: 82.32  



Trp tRNAs





Tyr tRNAs



>>>>>>>..>>>>........<<<<.>>>>>..................<<<<<................>>>>>.......<<<<<<<<<<<<.
CCGATGATAGCTCAGTTGGTAGAGCGGCAGACTGTAGttgaaatggttATCTGTTG...........GtCACCGGTTCGATTCCGGTTCATCGGA chr7.trna1-TyrGTA Sc: 74.68  



Val tRNAs


>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GCGGGCATGGTCTAGTGGCtA.TGACGCCTGCCTAACACGCAGGAG...........AtCCCGAGTTCGATCCTCGGTGCCCGTA chr12.trna2-ValAAC Sc: 76.70  


>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GCGAGCATGGTCTAGTGGCtA.TGACGTTCGCCTCACACGCGAAAG...........AtCCCGAGTTCGATCCTCGGTGCTCGTA chr3.trna1-ValCAC Sc: 77.44  

>>>>>>>..>>>...........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<.
GCGGGCATGGTCTAGTGGCtA.TGACGCCTGCCTTACACGCAGGAG...........AtCCCGAGTTCGATCCTCGGTGCCCGTA chr7.trna4-ValTAC Sc: 76.94

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.