tRNA Gene Summary

Overview
High confidence set 549
tRNAs decoding standard 20 AA 548
Selenocysteine tRNAs (TCA) 1
Notable atypical predictions  
Anticodon/isotype mismatch 36
Unexpected anticodons 15
Other tRNA-like predictions  
Primary filter (tRNAscan-SE pseudogenes) 392312
Secondary filter (low feature scores, possible rep. element) 10552
Tertiary filter (excessive isotype copies, possible rep. element) 126

Note: tRNA predictions in mitochondria and nuclear mitochondrial sequences (NUMTs) are not included in the current version of the database.

Intron Summary (tRNAs with introns: 40)
Arg TCT
5
Leu CAA
6
Lys CTT
1
Ile TAT
13
Tyr GTA
15

The codon usage of this genome was obtained from the Codon Usage Database.
Number of CDS: 392
Number of Codons: 139977

Four Box tRNA Sets
IsotypetRNA Count by AnticodonTotal
Codon Usage (Percentage)
AlaAGC
18
GGC
 
CGC
6
TGC
13
37
GCT
1.65
GCC
3.14
GCG
0.86
GCA
1.31
6.96%
GlyACC
 
GCC
13
CCC
7
TCC
9
29
GGT
0.92
GGC
2.25
GGG
1.56
GGA
1.6
6.33%
ProAGG
14
GGG
 
CGG
5
TGG
11
30
CCT
1.39
CCC
2.04
CCG
0.68
CCA
1.31
5.42%
ThrAGT
18
GGT
 
CGT
5
TGT
8
31
ACT
1.14
ACC
2.16
ACG
0.85
ACA
1.27
5.42%
ValAAC
14
GAC
 
CAC
21
TAC
5
40
GTT
1.02
GTC
1.83
GTG
3.05
GTA
0.62
6.52%
Six Box tRNA Sets
IsotypetRNA Count by AnticodonTotal
Codon Usage (Percentage)
SerAGA
11
GGA
 
CGA
4
TGA
4
ACT
 
GCT
19
 
 
 
 
38
TCT
1.42
TCC
1.89
TCG
0.49
TCA
0.95
AGT
1.02
AGC
1.88
 
 
 
 
7.65%
ArgACG
8
GCG
 
CCG
4
TCG
25
 
 
 
 
CCT
7
TCT
6
50
CGT
0.37
CGC
0.98
CGG
1.07
CGA
0.5
 
 
 
 
AGG
1.27
AGA
1.2
5.39%
LeuAAG
9
GAG
 
CAG
5
TAG
8
 
 
 
 
CAA
6
TAA
4
32
CTT
1.19
CTC
2.29
CTG
4.58
CTA
0.64
 
 
 
 
TTG
1.35
TTA
0.63
10.68%
Two Box tRNA Sets
IsotypetRNA Count by AnticodonTotal
Codon Usage (Percentage)
PheAAA
 
GAA
17
 
 
 
 
17
TTT
1.77
TTC
2.59
 
 
 
 
4.36%
AsnATT
 
GTT
23
 
 
 
 
23
AAT
1.7
AAC
2.42
 
 
 
 
4.12%
Lys 
 
 
 
CTT
38
TTT
13
51
 
 
 
 
AAG
3.07
AAA
2.33
5.4%
AspATC
 
GTC
13
 
 
 
 
13
GAT
1.95
GAC
2.68
 
 
 
 
4.63%
Glu 
 
 
 
CTC
8
TTC
13
21
 
 
 
 
GAG
3.58
GAA
2.71
6.29%
HisATG
 
GTG
16
 
 
 
 
16
CAT
0.87
CAC
1.48
 
 
 
 
2.35%
Gln 
 
 
 
CTG
17
TTG
5
22
 
 
 
 
CAG
3.01
CAA
1.16
4.17%
Two Box and Other tRNA Sets
IsotypetRNA Count by AnticodonTotal
Codon Usage (Percentage)
IleAAT
13
GAT
 
CAT
 
TAT
13
26
ATT
1.49
ATC
2.49
 
 
ATA
0.74
4.72%
iMet/Met 
 
 
 
CAT
12/10
 
 
22
 
 
 
 
ATG
2.24
 
 
2.24%
TyrATA
 
GTA
15
 
 
 
 
15
TAT
1.21
TAC
1.89
 
 
 
 
3.1%
Supres 
 
TCA
 
CTA
 
TTA
 
0
Stop 
 
TGA
0.15
TAG
0.05
TAA
0.07
0.27%
CysACA
 
GCA
23
 
 
 
 
23
TGT
1.05
TGC
1.38
 
 
 
 
2.43%
Trp 
 
 
 
CCA
12
 
 
12
 
 
 
 
TGG
1.53
 
 
1.53%
SelCys 
 
 
 
 
 
TCA
1
1
 
 
 
 
 
 
 
 
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