Gene: tRNA-Tyr-GTA-3-1

Overview
Organism Homo sapiens
Locus chr6:26577104-26577192 (+) View in Genome Browser
GtRNAdb Gene Symbol tRNA-Tyr-GTA-3-1
HGNC Symbol TRY-GTA3-1
RNAcentral ID URS0000758799_9606
tRNAscan-SE ID chr6.trna16
GtRNAdb 2009
Legacy Name and Score
chr6.trna16-TyrGTA (77.01 bits)
Predicted tRNA Isotype / Anticodon Tyr GTA
Top Scoring / Second Best Scoring Isotype Model Tyr (118.4 bits) / Phe (79.6 bits)
Predicted Anticodon and Top Isotype Model Consistent
Rank of tRNA Isodecoder 3 out of 11
Upstream / Downstream Sequence AAAAGGACAGCGTTCCGTGT / CGGTAGTTTTGACCTACCAA
Intron 38-53 (26577141-26577156)
Possible Pseudogene No
Gene Score 77.5
Mature tRNA Score 85.1
HMM Score 51.40
Secondary Structure Score 26.10
Atypical Features None
Known Modifications (Modomics) m2G10 D16 D17 acp3U20 m2,2G26 m2,2G27 galQtRNA34 Ψ35 m1G37 m1Ψ39 m2G6 m7G46 D47 m5C48 m5U54 Ψ55 m1A58
Sequence
Genomic Sequence
CCTTCGATAGCTCAGTTGGTAGAGCGGAGGACTGTAGgctcattaagcaaggtATCCTTAGGtCGCTGGTTCGAATCCGGCTCGGAGGA
Secondary Structure (nested bp)
>>>>>>>..>>>>........<<<<.>>>>>.......................<<<<<.....>>>>>.......<<<<<<<<<<<<.
Predicted Mature tRNA
CCUUCGAUAGCUCAGUUGGUAGAGCGGAGGACUGUAGAUCCUUAGGUCGCUGGUUCGAAUCCGGCUCGGAGGA
Alignments
Tyr tRNAs
>>>>>>>..>>>>........<<<<.>>>>>............................<<<<<................>>>>>.......<<<<<<<<<<<<.... CCTTCAATAGTTCAGCTGGTAGAGCAGAGGACTATAGctacttcctcagtaggagac.GTCCTTAG...........GtTGCTGGTTCGATTCCAGCTTGAAGGA... tRNA-Tyr-ATA-1-1 Sc: 57.6 >>>>>>>..>>>>........<<<<.>>>>>............................<<<<<................>>>>>.......<<<<<<<<<<<<.... CCTTCGATAGCTCAGTTGGTAGAGCGGAGGACTGTAGttggctgtgtccttagac...ATCCTTAG...........GtCGCTGGTTCGAATCCGGCTCGAAGGA... tRNA-Tyr-GTA-1-1 Sc: 77.9 CCTTCGATAGCTCAGTTGGTAGAGCGGAGGACTGTAGtggatagggcgtggca.....ATCCTTAG...........GtCGCTGGTTCGATTCCGGCTCGAAGGA... tRNA-Tyr-GTA-2-1 Sc: 77.9 CCTTCGATAGCTCAGTTGGTAGAGCGGAGGACTGTAGgctcattaagcaaggt.....ATCCTTAG...........GtCGCTGGTTCGAATCCGGCTCGGAGGA... tRNA-Tyr-GTA-3-1 Sc: 77.5 CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAGgcgcgcgcccgtggcc.....ATCCTTAG...........GtCGCTGGTTCGATTCCGGCTCGAAGGA... tRNA-Tyr-GTA-5-2 Sc: 75.5 CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAGtacttaatgtgtggtc.....ATCCTTAG...........GtCGCTGGTTCGATTCCGGCTCGAAGGA... tRNA-Tyr-GTA-5-5 Sc: 75.5 CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAGattgtatagacatttgcggacATCCTTAG...........GtCGCTGGTTCGATTCCAGCTCGAAGGA... tRNA-Tyr-GTA-4-1 Sc: 75.3 CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAGctacttcctcagcaggagac.ATCCTTAG...........GtCGCTGGTTCGATTCCGGCTCGAAGGA... tRNA-Tyr-GTA-5-1 Sc: 75.3 CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAGcctgtagaaacatttgtggacATCCTTAG...........GtCGCTGGTTCGATTCCGGCTCGAAGGA... tRNA-Tyr-GTA-5-3 Sc: 75.3 CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAGattgtacagacatttgcggacATCCTTAG...........GtCGCTGGTTCGATTCCGGCTCGAAGGA... tRNA-Tyr-GTA-5-4 Sc: 75.3 CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAGgggtttgaatgtggtc.....ATCCTTAG...........GtCGCTGGTTCGAATCCGGCTCGGAGGA... tRNA-Tyr-GTA-6-1 Sc: 75.1 CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAGactgcggaaacgtttgtggacATCCTTAG...........GtCGCTGGTTCAATTCCGGCTCGAAGGA... tRNA-Tyr-GTA-7-1 Sc: 74.3 CTTTCGATAGCTCAGTTGGTAGAGCGGAGGACTGTAGgttcattaaactaaggc....ATCCTTAG...........GtCGCTGGTTCGAATCCGGCTCGAAGGA... tRNA-Tyr-GTA-8-1 Sc: 72.4 >>>>>>>..>>>>........<<<<.>>>>>............................<<<<<................>.>>>.......<<<.<<<<<<<<.... TCTTCAATAGCTCAGCTGGTAGAGCGGAGGACTGTAGgtgcacgcccgtggcc.....ATTCTTAG...........G.TGCTGGTTTGATTCCGACTTGGAGAG... tRNA-Tyr-GTA-9-1 Sc: 52.0 >>>>>>>..>>>>........<<<<.>>>>>............................<<<<<................>>>>>.......<<<<<<<<<<<<.... CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAG.....................ATCCTTAG...........GtCGCTGGTTCAATTCCGGCTCGAAGGA... DY9990_GTA_HUMAN_CY CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAG.....................ATCCTTAG...........GtCGCTGGTTCGATTCCGGCTCGAAGGA... DY9991_GTA_HUMAN_CY CCTTCGATAGCTCAGCTGGTAGAGCGGAGGACTGTAG.....................ATCCTTAG...........GtCGCTGGTTCGATTCCGGCTCGAAGGAcca RY9990_GTA_HUMAN_PLACENTA CCTTCGATAGCTCAGTTGGTAGAGCGGAGGACTGTAG.....................ATCCTTAG...........GtCGCTGGTTCGATTCCGGCTCGAAGGAcca RY9991_GTA_HUMAN_PLACENTA
>>>>>.>..>.>>........<<.<.>>>>>...................<<<<<................>>.>>.......<<.<<..<.<<<<<. TCTTTGAgAGATCAGCTGATAGAGTGGAGGACTGTACacatctgtggacATCCTTAG...........GtTGCTGGTTCAATTCCTGC.tTGAGGGAA tRX-Tyr-NNN-1-1 Sc: 22.8 (filtered) best isotype model: Tyr Sc: 30.5
Isotype-Specific Model Scores
AlaArgAsnAspCysGlnGluGlyHisIleLeuLysMetPheProSeCSerThrTrpTyrValiMet
34.055.258.916.276.545.1-0.431.954.661.76.056.459.679.619.8No Hit10.975.855.3118.451.96.3
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 HitNo HitNo HitNo Hit-14.8No HitNo HitNo HitNo HitNo HitNo HitNo HitNo Hit33.1No HitNo HitNo HitNo HitNo HitNo HitNo Hit

Top score2nd highest score3rd highest score
DNA Variants (44)
tRNA Position Genomic Position dbSNP ID Ref/Alt Allele Common SNP 1K Genome Effect
2 (5′ Acceptor Stem)chr6:26577105rs939822894C / TNoNoGU base pair
7 (5′ Acceptor Stem)chr6:26577110rs1046381204A / GNoNoGU base pair
11 (5′ D-arm)chr6:26577114rs906440788C / TNoNoGU base pair
13 (5′ D-arm)chr6:26577116rs569721137C / TNoYesGU base pair
14 (D-loop)chr6:26577117rs1001884474A / TNoNouniversal base change
20 (D-loop)chr6:26577123rs1033734753T / ANoNosubstitution in loop
20 (D-loop)chr6:26577123rs1033734753T / CNoNosubstitution in loop
22 (3′ D-arm)chr6:26577125rs893574192G / ANoNobase pair mismatch
25 (3′ D-arm)chr6:26577128rs1010633412C / TNoNoGU base pair
32 (Anticodon Loop)chr6:26577135rs1020646518C / TNoNosubstitution in loop
34 (Anticodon Loop)chr6:26577137rs771476762G / ANoNosynonymous anticodon change
37 (Anticodon Loop)chr6:26577140rs1015547275G / CNoNosubstitution in loop
()chr6:26577141rs553782580G / ANoYesintron
()chr6:26577141rs553782580G / CNoYesintron
()chr6:26577142rs12663894C / TYesYesintron
()chr6:26577149rs1019197969A / GNoNointron
()chr6:26577151rs965298246C / TNoNointron
()chr6:26577154rs746547392G / ANoNointron
()chr6:26577154rs746547392G / CNoNointron
()chr6:26577156rs926751145T / CNoNointron
39 (3′ Anticodon Stem)chr6:26577158rs938112010T / ANoNobase pair mismatch
39 (3′ Anticodon Stem)chr6:26577158rs938112010T / CNoNobase pair mismatch
40 (3′ Anticodon Stem)chr6:26577159rs920569881C / ANoNobase pair mismatch
40 (3′ Anticodon Stem)chr6:26577159rs920569881C / TNoNoGU base pair
42 (3′ Anticodon Stem)chr6:26577161rs545922859T / CNoYesbase pair mismatch
43 (3′ Anticodon Stem)chr6:26577162rs562463752T / CNoYesrestore Watson-Crick base pair
43 (3′ Anticodon Stem)chr6:26577162rs562463752T / GNoYesbase pair mismatch
45 (Variable Loop)chr6:26577164rs983564252G / ANoNosubstitution in loop
45 (Variable Loop)chr6:26577164rs983564252G / CNoNosubstitution in loop
46 (Variable Loop)chr6:26577165rs907952202G / ANoNosubstitution in loop
49 (5′ T-arm)chr6:26577168rs939875073G / TNoNobase pair mismatch
50 (5′ T-arm)chr6:26577169rs1046229451C / GNoNobase pair mismatch
53 (5′ T-arm)chr6:26577172rs768112223G / ANoNobase pair mismatch
53 (5′ T-arm)chr6:26577172rs768112223G / TNoNobase pair mismatch
54 (T-Psi-C Loop)chr6:26577173rs76864766T / CNoYesuniversal base change
56 (T-Psi-C Loop)chr6:26577175rs761498051C / GNoNouniversal base change
56 (T-Psi-C Loop)chr6:26577175rs761498051C / TNoNouniversal base change
57 (T-Psi-C Loop)chr6:26577176rs900221557G / ANoNosubstitution in loop
57 (T-Psi-C Loop)chr6:26577176rs900221557G / CNoNosubstitution in loop
60 (T-Psi-C Loop)chr6:26577179rs1048505994T / CNoNosubstitution in loop
61 (3′ T-arm)chr6:26577180rs1055032576C / GNoNobase pair mismatch
64 (3′ T-arm)chr6:26577183rs764779877G / ANoNobase pair mismatch
67 (3′ Acceptor Stem)chr6:26577186rs74595947C / TNoYesGU base pair
68 (3′ Acceptor Stem)chr6:26577187rs1020698613G / CNoNobase pair mismatch