Gene: tRNA-Lys-CTT-2-4

Overview
Organism Homo sapiens
Locus chr6:26556774-26556846 (+) View in Genome Browser
GtRNAdb Gene Symbol tRNA-Lys-CTT-2-4
HGNC Symbol TRK-CTT2-4
RNAcentral ID URS00001AD596_9606
tRNAscan-SE ID chr6.trna13
GtRNAdb 2009
Legacy Name and Score
chr6.trna13-LysCTT (80.47 bits)
Predicted tRNA Isotype / Anticodon Lys CTT
Top Scoring / Second Best Scoring Isotype Model Lys (122.7 bits) / Arg (88.9 bits)
Predicted Anticodon and Top Isotype Model Consistent
Rank of tRNA Isodecoder 2 out of 16
Upstream / Downstream Sequence GAAGAGCTACGTTCGGGTGA / CTCTGGTTTTCAATCCTAAA
Intron None
Possible Pseudogene No
Gene Score 87.8
Mature tRNA Score 87.8
HMM Score 68.80
Secondary Structure Score 19.00
Atypical Features None
Genome Browser View with Related Data Tracks Zoomed in (750 bp flanking features)
Zoomed out (750 kbp flanking features)
Sequence
Genomic Sequence
GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTCAGGGtCGTGGGTTCGAGCCCCACGTTGGGCG
Secondary Structure (nested bp)
>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.
Predicted Mature tRNA
GCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCG
Alignments
Lys tRNAs
>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<...<. GCCCGGCTAGCTCAGTCGGTAGAGCATGGGACTCTTAATCCCAGG...........GtCGTGGGTTCGAGCCCCACGTTGGG...CG tRNA-Lys-CTT-1-1 Sc: 88.0 GCCCGGCTAGCTCAGTCGGTAGAGCATGGGACTCTTAATCCCAGG...........GtCGTGGGTTCGAGCCCCACGTTGGG...CG tRNA-Lys-CTT-1-2 Sc: 88.0 GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTCAGG...........GtCGTGGGTTCGAGCCCCACGTTGGG...CG tRNA-Lys-CTT-2-1 Sc: 87.8 GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTCAGG...........GtCGTGGGTTCGAGCCCCACGTTGGG...CG tRNA-Lys-CTT-2-2 Sc: 87.8 GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTCAGG...........GtCGTGGGTTCGAGCCCCACGTTGGG...CG tRNA-Lys-CTT-2-3 Sc: 87.8 GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTCAGG...........GtCGTGGGTTCGAGCCCCACGTTGGG...CG tRNA-Lys-CTT-2-4 Sc: 87.8 GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTCAGG...........GtCGTGGGTTCGAGCCCCACGTTGGG...CG tRNA-Lys-CTT-2-5 Sc: 87.8 GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACCCTTAATCTCAGG...........GtCGTGGGTTCGAGCCCCACGTTGGG...CG tRNA-Lys-CTT-3-1 Sc: 83.1 GCCCGGCTAGCTCAGTCGGTAGAGCATGGGACTCTTAATCTCAGG...........GtCGTGGGTTCGAGCCCCACGTTGGG...CG tRNA-Lys-CTT-4-1 Sc: 82.3 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>.>.......<.<<<<<<<<<...<. GCCCGGCTAGCTCAGTCGATAGAGCATGAGACTCTTAATCTCAGG...........GtCGTGGGTTCGAGCCGCACGTTGGG...CG tRNA-Lys-CTT-5-1 Sc: 69.3 >>>.>>>..>>>>........<<<<.>>>>>.......<<<<<.................>>>>.......<<<<.<<<.<<...<. GCCCAGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTCAGG...........GtCATGGGTTTGAGCCCCACGTTTGG...TG tRNA-Lys-CTT-7-1 Sc: 64.8 >>>>>>....>>>........<<<..>>>>>.......<<<<<................>>>>>.......<<<<<.<<<<<...<. GCCCGACTACCTCAGTCGGTGGAGCATGGGACTCTTCATCCCAGG...........GtTGTGGGTTCGAGCCCCACATTGGG...CA tRNA-Lys-CTT-9-1 Sc: 58.2 >>>>>>>..>>>..........<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<...<. GCCTGGCTAGCTCAGTCGGCAAAGCATGAGACTCTTAATCTCAGG...........GtCGTGGGCTCGAGCTCCATGTTGGG...CG tRNA-Lys-CTT-8-1 Sc: 57.8 >..>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<.....<. G..CAGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTCAGG...........GtCATGGGTTCGTGCCCCATGTTGGGtgcCA tRNA-Lys-CTT-11-1 Sc: 56.6 >>>>>>>..>>>>........<<<<.>.>>>.......<<<.<................>>>>.........<<<<<<<<<<...<. GCCCAGCTAGCTCAGTCGGTAGAGCATAAGACTCTTAATCTCAGG...........GtTGTGGATTCGTGCCCCATGCTGGG...TG tRNA-Lys-CTT-10-1 Sc: 54.8 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<...<. GCCCGGCTAGCTCAGTCGGTAGAGCATGAGACTCTTAATCTCAGG...........GtCGTGGGTTCGAGCCCCACGTTGGG...CG DK9991_CTT_HUMAN_CY >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<...<. GCCTGGATAGCTCAGTTGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAGGGTTCAAGTCCCTGTTCAGG...CA tRNA-Lys-TTT-1-1 Sc: 89.0 GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAGGGTTCAAGTCCCTGTTCGGG...CG tRNA-Lys-TTT-3-1 Sc: 87.8 GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAGGGTTCAAGTCCCTGTTCGGG...CG tRNA-Lys-TTT-3-2 Sc: 87.8 GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAGGGTTCAAGTCCCTGTTCGGG...CG tRNA-Lys-TTT-3-3 Sc: 87.8 GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAGGGTTCAAGTCCCTGTTCGGG...CG tRNA-Lys-TTT-3-4 Sc: 87.8 GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAGGGTTCAAGTCCCTGTTCGGG...CG tRNA-Lys-TTT-3-5 Sc: 87.8 GCCTGGATAGCTCAGTTGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAGGGTTCAAGTCCCTGTTCAGG...CG tRNA-Lys-TTT-2-1 Sc: 87.7 GCCTGGATAGCTCAGTCGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAGGGTTCAAGTCCCTGTTCAGG...CG tRNA-Lys-TTT-4-1 Sc: 86.8 GCCTGGGTAGCTCAGTCGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAGGGTTCAAGTCCCTGTCCAGG...CG tRNA-Lys-TTT-6-1 Sc: 85.2 GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCGGGGTTCAAGTCCCTGTTCGGG...CG tRNA-Lys-TTT-5-1 Sc: 84.9 >>>>>>>..>.>>........<<.<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<...<. GCCTGGATAGCTCAGTTGGTAGAACATCAGACTTTTAATCTGACG...........GtGCAGGGTTCAAGTCCCTGTTCAGG...CG tRNA-Lys-TTT-7-1 Sc: 74.9 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<.................>.>>.......<<.<.<<<<<<...<. ACCCAGATAGCTCAGTCAGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAAGGTTCATGTCCCTTTTTGGG...TG tRNA-Lys-TTT-11-1 Sc: 50.7 >>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<...<. GCCCGGATAGCTCAGTCGGTAGAGCATCAGACTTTTAATCTGAGG...........GtCCAGGGTTCAAGTCCCTGTTCGGG...CG DK9990_TTT_HUMAN_CY
.......>...>.>>>.........>>>>..........................<<<<....>>>>>.........<<<<<.................>>>>>.......<<<<<.......<<<.<.<.... .......GA..CGAGC......T.AGCTCAG................TCGGT.A.GAGCA...TGGGACTCTTAA..TCCCAGG...........GtC.GTGGGTTTGAGCCCCAT.......GTTGGGCA... tRNA-Lys-CTT-6-1 Sc: 63.1 (filtered) best isotype model: Lys Sc: 93.7 .......>>..>>>>>.........>>>>..........................<<<<....>>>>>.........<<<<<.................>.>>>.......<<<.<.......<<<<<<<.... .......GC..CCGGA......G.AGCTCAG................T.GGGtA.GAGCA...TCAGACTTTTAA..TCTGAGG...........GtC.CAGGGTTCAAGTCCTCG.......TTCGGGCA... tRNA-Lys-TTT-8-1 Sc: 65.1 (filtered) best isotype model: Lys Sc: 85.6 .......>>..>>>>>.........>>>>..........................<<<<....>>.>>.........<<.<<.................>>>>>.......<<<<<.......<<<<<<<.... .......GC..CCGGA......T.AGTTCAG................TTGGT.A.GAGCA...TCAGACT..TAA..TCAGAGG...........GtC.CAGGGTTCAAGTCCCTG.......TTTGGGTG... tRNA-Sup-TTA-1-1 Sc: 57.1 (filtered) best isotype model: Lys Sc: 83.7 ........>..>>>>>.........>.>>..........................<<.<....>>>>>.........<<<<<.................>>>>>.......<<<<<.......<<<<<<..... .......AC..CTGGG......T.AGCTCAG................TAGGT.A.GAACA...TCAGACTTTTAA..TCTGAGG...........GtC.TAGGGTTCAAGTCCCTG.......TCCAGGCG... tRNA-Lys-TTT-9-1 Sc: 61.2 (filtered) best isotype model: Lys Sc: 82.7 ........>..>>>>..........>.>>..........................<<.<....>>>>>.........<<<<<.................>>>>>.......<<<<<........<<<<<..... .......CC..CCGGC......T.GGCTCAG................TCAGT.A.GATCA...TGAGACTCTTAA..TCTCAGG...........GtC.GTGGGTTCACGCCCCAC.......ACTGGGCG... tRX-Lys-NNN-1-1 Sc: 46.8 (filtered) best isotype model: Lys Sc: 80.2 .......>>..>.>>>.........>>>>..........................<<<<....>>>>...........<<<<.................>>>>>.......<<<<<.......<<<.<<<.... .......GC..CAGGA......T.AGTTCAG................GTGGT.A.GAGCA...TCAGACTTTTAA..CCTGAGG...........GtT.CAGGGTTCAAGTCTCTG.......TTTGGGCG... tRNA-Lys-TTT-10-1 Sc: 49.9 (filtered) best isotype model: Lys Sc: 76.6 .......>>..>>>>>.........>>>>..........................<<<<....>>>>>.........<<<<<.................>>>>.........<<<<.......<<<<<<<.... .......AC..CTGGG......T.AGCTTAG................TTGGT.A.GAGCA...TTGGACTTTTAA..TTTGAGG...........GcC.CAGGTTTCAAGTCCCTG.......TTTGGGTG... tRNA-Lys-TTT-12-1 Sc: 53.8 (filtered) best isotype model: Lys Sc: 73.3 .......>>..>>>>...........>>............................<<.....>>>>>.........<<<<<.................>>>>>.......<<<<<........<<<<<<.... .......GCcaCCAGCa.....T.GTCTCAG................TCGGT.A.TAGTG...TGAGACTCTTAA..TCTCAGG...........GtC.GTGGGTTCAAGCCCCACa.......TTGGGCG... tRNA-Lys-CTT-12-1 Sc: 48.3 (filtered) best isotype model: Lys Sc: 73.0 .......>>..>>>>>.........>>>>..........................<<<<....>>>.>.........<.<<<.................>>>>>.......<<<<<.......<<<<<<<.... .......GC..CTGGA......T.AGCTCCT................TCGGT.A.GAGCAtcaTCAGACTTTTAA..TGTGAGG...........GtC.CAGGGTTCAAGTTCCTG.......TTTGGGCG... tRX-Lys-NNN-2-1 Sc: 41.4 (filtered) best isotype model: Lys Sc: 72.2 .......>>..>>>>>.........>.>>..........................<<.<....>.>>>.........<<<.<..................>>>>.......<<<<........<<<<<<<.... .......GT..CTAGC......T.AGATCAG................TTGGT.A.GAGCA...TAAGACTCTTAA..TCTCAGG...........GtC.ATGGGTTTGAGCCCTAC.......GTTGGGCG... tRNA-Lys-CTT-13-1 Sc: 46.9 (filtered) best isotype model: Lys Sc: 69.8 .......>>...>>>>.........>>>>..........................<<<<......>>>.........<<<...................>>>>>.......<<<<<.......<<<<.<<.... .......GC..CCAGC......T.AGCTCAG................CCGGT.A.GAGCA...CAAGACTCTTAA..TCTCAGG...........GtC.GTGGGTTTGAGCCCTGT.......GTTGAGCA... tRNA-Lys-CTT-14-1 Sc: 48.5 (filtered) best isotype model: Lys Sc: 69.8 .......>>..>..>>.........>>>>..........................<<<<....>>>>>.........<<<<<.................>>>>>.......<<<<<.......<<..<<<.... .......TA..AACAAcccagaT.AGCTCAG................TTGAT.A.GAGCA...TCAGACTTTTAA..TCTGAGG...........GtC.CAGGGTTCATGTCCCTG.......TTCCTTAA... tRNA-Lys-TTT-14-1 Sc: 47.3 (filtered) best isotype model: Lys Sc: 68.3 .......>>...>.>>...........>>..........................<<......>>>>>.........<<<<<.................>>>>>.......<<<<<.......<<.<.<<.... .......GC..ACTGC......A.CAGTCAG................TCAGT.A.GAGCA...TGGGACTCTTAA..TCCCAGG...........GtC.GTGGGTTCAAGCCCCAC.......GTTGGGCG... tRX-Lys-NNN-3-1 Sc: 35.4 (filtered) best isotype model: Lys Sc: 65.8 ...........>>>>..........>>>>..........................<<<<....>>>>>.........<<<<<.................>>>>>.......<<<<<........<<<<...... .......AA..CCGAA......T.AGCTTAG................TTGAT.G.AAGCG...TGAGACTCTTAA..TCTCAGG...........GtA.GTGGGTTCAAGCCCCAC.......ATTGGACA... tRNA-Lys-CTT-15-1 Sc: 40.3 (filtered) best isotype model: Lys Sc: 64.7 .......>>...>>>...........>>>..........................<<<.....>>>>>.........<<<<<.................>>>>>.......<<<<<........<<<.<<.... .......GC..CTGGC......T.ACCTCAG................TTGGT.A.GAGCA...TGGGACTCTTAA..TCCCAGA...........GtCaGTGGGTTCAAGCCTCAC.......ATTGAGTG... tRNA-Lys-CTT-16-1 Sc: 35.8 (filtered) best isotype model: Lys Sc: 64.5 .......>>..>...>.........>>>............................<<<....>>>>>.........<<<<<.................>>>>>.......<<<<<.......<...<<<.... .......GG..CAGGC.........GCT.AG................TCAGT.A.GAGCA...TGAGACTCTTAA..TCTCAGG...........GtC.GTGGGTTCGAGCCCCAC..atc..GGGCGCCA... tRX-Lys-NNN-4-1 Sc: 34.5 (filtered) best isotype model: Lys Sc: 59.1 .......>>..>>.>>.........>>>>..........................<<<<....>>>>...........<<<<.................>>>>>.......<<<<<.......<<.<<<<.... .......GC..CTGGG......T.AGCTCAG................TCGGT.A.GAGCTa..TCAGACTTTTAG..CCTGAGG...........AtT.CAGGGTTCAATCCCTTG.......CTGGGGCG... tRNA-Lys-TTT-13-1 Sc: 46.0 (filtered) best isotype model: Lys Sc: 57.8 .......>>..>.>>>.........>>>>..........................<<<<.....>>>>.........<<<<..................>>.>>.......<<.<<.......<<<.<<<.... .......GT..TGGGG......T.AACTCAG................TTGGT.A.GAGTA...GCAGACTTTTCA..TCTGAGG...........GtC.CAGGGTTTAAGTCCATG.......TCCAGGCA... tRNA-Lys-TTT-15-1 Sc: 34.5 (filtered) best isotype model: Lys Sc: 51.9 .......>>..>>.>>.........>................................<....>>>>>.........<<<<<.................>>>>>.......<<<<<.......<<.<<<<.... gttttgtTT..CTTAT......TgGGGGAAG................TCGGT.A.GAACA...TGAGATTCTTAA..TCTCAGG...........GtC.CTGGGTTTAAGCCCCAG.......GTTGGGAGcca tRX-Lys-NNN-5-1 Sc: 31.1 (filtered) best isotype model: Lys Sc: 47.6 .......>>..>>>>>..........>>>..........................<<<.....>>>>>.........<<<<<.................>>.............<<.......<<<<<<<.... .......GC..CCAAC......T.GGTTCAG................TCGGT.A.GAGAA...TGAGACTCTTAA..TCTCAG............GtC.ATAGATTCATGTCACAT.......GTTGGGTG... tRX-Lys-NNN-6-1 Sc: 29.9 (filtered) best isotype model: Lys Sc: 40.8 .......>...>>>............>>>..........................<<<.....>>>.>.........<.<<<.................>>>>>.......<<<<<.........<<<.<.... .......GA..CTC........T.GTCTCAAaaaaaaaaaaaaaaaaT.GGTtA.GAGTG...TGGTGCTAATAA..CCCCAAG...........GtC.GCAGGTTTGATCCCTGT.......AGGGGCCA... tRX-Ile-NNN-4-1 Sc: 20.5 (filtered) best isotype model: Lys Sc: 14.9
Isotype-Specific Model Scores
AlaArgAsnAspCysGlnGluGlyHisIleLeuLysMetPheProSeCSerThrTrpTyrValiMet
54.188.983.426.153.633.721.938.837.782.821.4122.772.155.129.4No Hit11.972.059.642.147.1-26.3
mt-Alamt-Argmt-Asnmt-Aspmt-Cysmt-Glnmt-Glumt-Glymt-Hismt-Ilemt-LeuTAAmt-LeuTAGmt-Lysmt-Metmt-Phemt-Promt-SerGCTmt-SerTGAmt-Thrmt-Trpmt-Tyrmt-Val
No HitNo Hit-12.3No HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo Hit16.9No HitNo HitNo HitNo HitNo Hit-19.0No Hit

Top score2nd highest score3rd highest score
DNA Variants (24)
tRNA Position Genomic Position dbSNP ID Ref/Alt Allele Common SNP 1K Genome Effect
1 (5′ Acceptor Stem)chr6:26556774rs560161343G / ANoYesbase pair mismatch
2 (5′ Acceptor Stem)chr6:26556775rs532291923C / GNoYesbase pair mismatch
5 (5′ Acceptor Stem)chr6:26556778rs181517050G / CNoYesbase pair mismatch
9 (Acceptor-D-arm-linker)chr6:26556782rs769857684A / GNoNosubstitution in loop
10 (5′ D-arm)chr6:26556783rs562337247G / CNoYesbase pair mismatch
11 (5′ D-arm)chr6:26556784rs186106605C / TNoYesGU base pair
15 (D-loop)chr6:26556788rs138337033G / CNoYessubstitution in loop
17 (D-loop)chr6:26556790rs568173750C / TNoYessubstitution in loop
20 (D-loop)chr6:26556793rs771248346T / CNoNosubstitution in loop
24 (3′ D-arm)chr6:26556797rs60532838G / ANoYesbase pair mismatch
26 (D-arm-Anticodon-linker)chr6:26556799rs778340435- / TNoNosubstitution in loop
27 (5′ Anticodon Stem)chr6:26556800rs181253315T / GNoYesbase pair mismatch
32 (Anticodon Loop)chr6:26556805rs571015545C / TNoYessubstitution in loop
33 (Anticodon Loop)chr6:26556806rs376488890T / CNoYesuniversal base change
39 (3′ Anticodon Stem)chr6:26556812rs556944739T / CNoYesbase pair mismatch
46 (Variable Loop)chr6:26556819rs576700793G / ANoYessubstitution in loop
62 (3′ T-arm)chr6:26556835rs149649999C / TNoYesGU base pair
65 (3′ T-arm)chr6:26556838rs186758617C / GNoYesbase pair mismatch
65 (3′ T-arm)chr6:26556838rs186758617C / TNoYesGU base pair
66 (3′ Acceptor Stem)chr6:26556839rs373103406G / TNoNobase pair mismatch
68 (3′ Acceptor Stem)chr6:26556841rs761241418T / CNoNorestore Watson-Crick base pair
70 (3′ Acceptor Stem)chr6:26556843rs80287740G / AYesYesbase pair mismatch
72 (3′ Acceptor Stem)chr6:26556845rs143390864C / ANoYesbase pair mismatch
72 (3′ Acceptor Stem)chr6:26556845rs143390864C / TNoYesGU base pair
Expression Profiles