GtRNAdb: Genomic tRNA Database

Gene: tRNA-Asp-GTC-2-3

Overview

Organism	Homo sapiens
Locus	chr1:161425414-161425485 (-) View in Genome Browser
GtRNAdb Gene Symbol	tRNA-Asp-GTC-2-3
HGNC Symbol	TRD-GTC2-3
RNAcentral ID	URS00006174C2_9606
tRNAscan-SE ID	chr1.trna73
GtRNAdb 2009 Legacy Name and Score	chr1.trna75-AspGTC (72.92 bits)
Predicted tRNA Isotype / Anticodon	Asp GTC
Top Scoring / Second Best Scoring Isotype Model	Asp (109.9 bits) / Gly (76.5 bits)
Predicted Anticodon and Top Isotype Model	Consistent
Rank of tRNA Isodecoder	2 out of 10
Upstream / Downstream Sequence	CCCGGCGACCGTCGCCGTCG / GCAGCCGTGCTTTTTGGGCC
Intron	None
Possible Pseudogene	No
Gene Score	66.5
Mature tRNA Score	66.5
HMM Score	35.70
Secondary Structure Score	30.80
Atypical Features	None
Genome Browser View with Related Data Tracks	Zoomed in (750 bp flanking features) Zoomed out (750 kbp flanking features)

Secondary Structure

Sequence

Genomic Sequence

TCCTCGTTAGTATAGTGGTgAGTATCCCCGCCTGTCACGCGGGAGaCCGGGGTTCGATTCCCCGACGGGGAG

Secondary Structure (nested bp)

>>>>>>>..>>>>........<<<<.>>>>>.......<<<<<....>>>>>.......<<<<<<<<<<<<.

Predicted Mature tRNA

UCCUCGUUAGUAUAGUGGUGAGUAUCCCCGCCUGUCACGCGGGAGACCGGGGUUCGAUUCCCCGACGGGGAG

Alignments

Asp tRNAs



>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<<<<<<<<.
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-1 Sc: 66.5  
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-10 Sc: 66.5  
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-11 Sc: 66.5  
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-2 Sc: 66.5  
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-3 Sc: 66.5  
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-4 Sc: 66.5  
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-5 Sc: 66.5  
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-6 Sc: 66.5  
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-7 Sc: 66.5  
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-8 Sc: 66.5  
TCCTCGTTAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-2-9 Sc: 66.5  
TCCTCGTTAGTATAGTGGTtA.GTATCCCCGCCTGTCACGCGGGAG...........ACCGGGGTTCAATTCCCCGACGGGGAG tRNA-Asp-GTC-1-1 Sc: 65.4  
TCCTCGTTAGTATAGTGGTgA.GTGTCCCCGTCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCGACGGGGAG tRNA-Asp-GTC-3-1 Sc: 58.2  


>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<................>>>>.......<<<<..<<<<<<<.
TCCTCGTTAGTATGGTGGTgA.GTATCCCTGCCTGTCACGCGGGAG...........ACCGGGGTTCGATTCCCCA.ACGGGGAG tRNA-Asp-GTC-4-1 Sc: 47.6 (filtered) best isotype model: Asp Sc: 92.3
>>>>>.>..>>>>.........<<<<.>>>>>.......<<<<<...............>>>>>.......<<<<<.<.<<<<<.
TCCTCATCAGTATAGTGGTgA.GTATCCCCGCCTGTCACGCGGGAG...........ACTGGGGTTCGATTCCCTG.AGGAGGAG tRNA-Asp-GTC-5-1 Sc: 40.3 (filtered) best isotype model: Asp Sc: 82.2
>>>>>>>..>>>>.........<<<<.>>>.>.......<.<<<...............>>>>>.......<<<<<.<<<<<<<.
TTCTTGTTAATATAGTGGTgA.GTATTCCCACCTGTCATGCGGGA............GACGGGGTTCAATTCCCTG.ATGGGGAG tRNA-Asp-GTC-6-1 Sc: 38.2 (filtered) best isotype model: Asp Sc: 68.8
>>>>>>>...>>>.........<<<..>.>>>.......<<<.<................>>>>.......<<<<..<<<<<<<.
TCCTTGTTACTATAGTGGTgA.GTATCTCTGCCTGTCATGCGTGAG...........AGAGGGGGTCGATTCCCCG.ACGGGGAG tRNA-Asp-GTC-10-1 Sc: 23.5 (filtered) best isotype model: Asp Sc: 57.0
>>>>>>>..>>>>.........<<<<.>>>>>.......<<<<<...............>>>.>.......<.<<<.<<<<<<<.
TCCTTGTTAGTATAGTGGTgA.GTGTTTCTGCCTGTCATGTGGAG............ACTGGAGTTTGAGTCCCCA.ACAGGGAG tRNA-Asp-GTC-8-1 Sc: 30.3 (filtered) best isotype model: Asp Sc: 53.6
>>>>>>>...>>>.........<<<..>.>>>.......<<<.<................>>>>.......<<<<..<<<<<<<.
TCCTTGTTACTATAGTGGTaA.GTATCTCTGCCTGTCATGCATGAG...........AGAGGGGGTCGATTCCCTG.ACGGGGAG tRNA-Asp-GTC-9-1 Sc: 24.8 (filtered) best isotype model: Asp Sc: 53.0

Isotype-Specific Model Scores

Ala	Arg	Asn	Asp	Cys	Gln	Glu	Gly	His	Ile	Leu	Lys	Met	Phe	Pro	SeC	Ser	Thr	Trp	Tyr	Val	iMet
45.1	45.0	21.3	109.9	26.6	50.4	63.8	76.5	63.5	25.6	No Hit	13.0	45.2	No Hit	43.5	-16.3	No Hit	56.0	37.9	26.9	40.5	No Hit

mt-Ala	mt-Arg	mt-Asn	mt-Asp	mt-Cys	mt-Gln	mt-Glu	mt-Gly	mt-His	mt-Ile	mt-LeuTAA	mt-LeuTAG	mt-Lys	mt-Met	mt-Phe	mt-Pro	mt-SerGCT	mt-SerTGA	mt-Thr	mt-Trp	mt-Tyr	mt-Val
No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit

Top score

2nd highest score

3rd highest score

DNA Variants (1)

tRNA Position	Genomic Position	dbSNP ID	Ref/Alt Allele	Common SNP	1K Genome	Effect
64 (3′ T-arm)	chr1:161425423	rs111970151	C / G	No	No	base pair mismatch

Homo sapiens (Human Feb. 2009 GRCh37/hg19)

Gene: tRNA-Asp-GTC-2-3

Overview

Secondary Structure

Sequence

Asp tRNAs

Mature tRNA (Cozen et al. Nature Met. 2015. 12:879-884.)

Pre-tRNA (Cozen et al. Nature Met. 2015. 12:879-884.)