GtRNAdb

tRNAscan-SE Analysis of Bos taurus (cow) (Baylor release Btau_4.0 Oct 2007)

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tRNA Gene Summary

tRNA-derived SINEs are found in a number of eukaryotes especially mammalian genomes. After manual inspection and analysis, we apply the following filter to this genome for eliminating these tRNA-derived elements from true tRNAs. If the tRNA candidates have hits in both tRNAscan and Eufind first-pass scanners, we use a combination of at least 20 bits COVE score, 10 bits HMM score, and 5 bits 2' structure score to define a true tRNA. If the tRNA candidates only have hits in one of the first-pass scanners, the threshold of a true tRNA will be 55 bits COVE score.





tRNAs Decoding Standard 20 AA4112
Selenocysteine tRNAs (TCA)25
Possible suppressor tRNAs (CTA,TTA)16
tRNAs with undetermined
or unknown isotypes
8
Predicted pseudogenes0
Total tRNAs4161


Intron Summary

tRNAs with introns
56
Ala
AGC
1
Gly
ACC
2
Gly
GCC
1
Gly
CCC
5
Gly
TCC
3
Thr
CGT
1
Arg
TCT
5
Leu
AAG
1
Leu
CAA
6
Lys
CTT
1
Glu
CTC
2
Glu
TTC
1
Gln
CTG
1
Gln
TTG
1
Ile
TAT
5
Tyr
GTA
17
Cys
GCA
2
Trp
CCA
1


Four Box tRNA Sets

IsotypetRNA Count by AnticodonTotal
AlaAGC
30
GGC
2
CGC
17
TGC
34
83
GlyACC
20
GCC
62
CCC
1315
TCC
398
1795
ProAGG
12
GGG
 
CGG
5
TGG
9
26
ThrAGT
14
GGT
1
CGT
7
TGT
10
32
ValAAC
23
GAC
 
CAC
45
TAC
22
90

Six Box tRNA Sets

IsotypetRNA Count by AnticodonTotal
SerAGA
14
GGA
30
CGA
7
TGA
6
ACT
4
GCT
18
 
 
 
 
79
ArgACG
14
GCG
9
CCG
14
TCG
12
 
 
 
 
CCT
111
TCT
44
204
LeuAAG
11
GAG
 
CAG
9
TAG
5
 
 
 
 
CAA
15
TAA
9
49

Two Box tRNA Sets

IsotypetRNA Count by AnticodonTotal
PheAAA
7
GAA
28
 
 
 
 
35
AsnATT
 
GTT
40
 
 
 
 
40
Lys 
 
 
 
CTT
40
TTT
81
121
AspATC
6
GTC
48
 
 
 
 
54
Glu 
 
 
 
CTC
171
TTC
450
621
HisATG
3
GTG
22
 
 
 
 
25
Gln 
 
 
 
CTG
42
TTG
18
60

Two Box & Other tRNA Sets

IsotypetRNA Count by AnticodonTotal
IleAAT
17
GAT
 
 
 
TAT
8
25
Met 
 
 
 
CAT
33
 
 
33
TyrATA
10
GTA
38
 
 
 
 
48
Supres 
 
 
 
CTA
12
TTA
4
16
CysACA
157
GCA
353
 
 
 
 
510
Trp 
 
 
 
CCA
182
 
 
182
SelCys 
 
 
 
 
 
TCA
25
25

The Genomic tRNA Database is curated by Todd Lowe and Patricia Chan. Please email lowe@soe.ucsc.edu with any questions and comments. To submit corrections, please use our Bug and Request Tracking System.