Gene: tRNA-Trp-CCA-3-1

Overview
Organism Homo sapiens
Locus chr6:26319330-26319401 (-) View in Genome Browser
GtRNAdb Gene Symbol tRNA-Trp-CCA-3-1
HGNC Symbol TRW-CCA3-1
RNAcentral ID URS0000222FD2_9606
tRNAscan-SE ID chr6.trna175
GtRNAdb 2009
Legacy Name and Score
chr6.trna170-TrpCCA (74.00 bits)
Predicted tRNA Isotype / Anticodon Trp CCA
Top Scoring / Second Best Scoring Isotype Model Trp (106.9 bits) / Arg (80.4 bits)
Predicted Anticodon and Top Isotype Model Consistent
Rank of tRNA Isodecoder 3 out of 5
Upstream / Downstream Sequence GGAAAATGGAGGGTCTCCGT / TGGGTGGTTGCGTTTTGGAA
Intron None
Possible Pseudogene No
Gene Score 73.3
Mature tRNA Score 73.3
HMM Score 50.60
Secondary Structure Score 22.70
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
GACCTCGTGGCGCAACGGTAGCGCGTCTGACTCCAGATCAGAAGGtTGCGTGTTCAAATCACGTCGGGGTCA
Secondary Structure (nested bp)
>>>>>>>..>>>>.......<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.
Predicted Mature tRNA
GACCUCGUGGCGCAACGGUAGCGCGUCUGACUCCAGAUCAGAAGGUUGCGUGUUCAAAUCACGUCGGGGUCA
Alignments
Trp tRNAs
>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<. GACCTCGTGGCGCAATGGTA.GCGCGTCTGACTCCAGATCAGAAG...........GtTGCGTGTTCAAGTCACGTCGGGGTCA tRNA-Trp-CCA-2-1 Sc: 75.1 GACCTCGTGGCGCAACGGTA.GCGCGTCTGACTCCAGATCAGAAG...........GcTGCGTGTTCGAATCACGTCGGGGTCA tRNA-Trp-CCA-4-1 Sc: 74.3 GGCCTCGTGGCGCAACGGTA.GCGCGTCTGACTCCAGATCAGAAG...........GtTGCGTGTTCAAATCACGTCGGGGTCA tRNA-Trp-CCA-1-1 Sc: 73.4 GACCTCGTGGCGCAACGGTA.GCGCGTCTGACTCCAGATCAGAAG...........GtTGCGTGTTCAAATCACGTCGGGGTCA tRNA-Trp-CCA-3-1 Sc: 73.3 GACCTCGTGGCGCAACGGTA.GCGCGTCTGACTCCAGATCAGAAG...........GtTGCGTGTTCAAATCACGTCGGGGTCA tRNA-Trp-CCA-3-2 Sc: 73.3 GACCTCGTGGCGCAACGGTA.GCGCGTCTGACTCCAGATCAGAAG...........GtTGCGTGTTCAAATCACGTCGGGGTCA tRNA-Trp-CCA-3-3 Sc: 73.3 GACCTCGTGGCGCAACGGCA.GCGCGTCTGACTCCAGATCAGAAG...........GtTGCGTGTTCAAATCACGTCGGGGTCA tRNA-Trp-CCA-5-1 Sc: 68.8
>>>>>>...>>>>........<<<<.>>>>>.......<<<<<................>>.>>.......<<.<<.<<<<<<. GGCCTCATGGTGCAACAGTA.GTGTGTCTGACTCCAGATCAGAAG...........GtTGTATGTTCAAATCACGTAGGGGTCA tRX-Trp-NNN-1-1 Sc: 30.6 (filtered) best isotype model: Trp Sc: 53.9
Isotype-Specific Model Scores
AlaArgAsnAspCysGlnGluGlyHisIleLeuLysMetPheProSeCSerThrTrpTyrValiMet
41.980.457.7No Hit66.533.8No Hit39.955.763.120.844.449.432.830.2No Hit22.068.3106.951.438.9-9.4
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 HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo HitNo Hit

Top score2nd highest score3rd highest score
DNA Variants (15)
tRNA Position Genomic Position dbSNP ID Ref/Alt Allele Common SNP 1K Genome Effect
3 (5′ Acceptor Stem)chr6:26319399rs758701670C / GNoNobase pair mismatch
6 (5′ Acceptor Stem)chr6:26319396rs750810921C / TNoNoGU base pair
11 (5′ D-arm)chr6:26319391rs558308326C / TNoYesGU base pair
12 (5′ D-arm)chr6:26319390rs184968699G / ANoYesbase pair mismatch
13 (5′ D-arm)chr6:26319389rs139849531C / TNoYesGU base pair
18 (D-loop)chr6:26319385rs150667161G / ANoYesuniversal base change
37 (Anticodon Loop)chr6:26319366rs376929387G / CNoNosubstitution in loop
39 (3′ Anticodon Stem)chr6:26319364rs536472523T / GNoYesbase pair mismatch
46 (Variable Loop)chr6:26319357rs141977360G / ANoYessubstitution in loop
50 (5′ T-arm)chr6:26319353rs548687262C / TNoYesGU base pair
61 (3′ T-arm)chr6:26319342rs796643078C / GNoNobase pair mismatch
63 (3′ T-arm)chr6:26319340rs571007388C / TNoYesGU base pair
65 (3′ T-arm)chr6:26319338rs761822313T / GNoNobase pair mismatch
66 (3′ Acceptor Stem)chr6:26319337rs182578162C / TNoYesGU base pair
67 (3′ Acceptor Stem)chr6:26319336rs552294100G / CNoYesbase pair mismatch
Expression Profiles