tRFtarget 2.0
Explore
t
ransfer
R
NA-derived
F
ragment
target
s
Home
Search
by tRF
by RNA
by Gene
Browse
by tRF
by RNA
by Gene
Online Targets
Method
Statistics
Manual
Team
Number of tRFs covered by tRFtarget
Human tRFs: 270 (13~48 nts)
tRF-1
: 32
tRF-3
: 62
tRF-3a
: 32
tRF-3b
: 30
tRF-5
: 63
tRF-5a
: 22
tRF-5b
: 23
tRF-5c
: 18
tsRNA
: 113
Mouse tRFs: 164 (14~34 nts)
tRF-1
: 30
tRF-3
: 92
tRF-3a
: 45
tRF-3b
: 47
tRF-5
: 42
tRF-5a
: 22
tRF-5b
: 19
tRF-5c
: 1
Drosophila tRFs: 86 (16~29 nts)
tRF-1
: 21
tRF-3
: 43
tRF-5
: 22
C. elegans tRFs: 47 (17~26 nts)
tRF-3
: 30
tRF-5
: 17
S. pombe tRFs: 104 (14~31 nts)
tRF-1
: 11
tRF-3
: 44
tRF-5
: 49
R. sphaeroides tRFs: 87 (13~32 nts)
tRF-3
: 40
tRF-5
: 47
Xenopus tropicalis tRFs: 51 (13~36 nts)
tRF-1
: 18
tRF-3
: 13
tRF-5
: 20
Zebrafish tRFs: 127 (17~28 nts)
tRF-1
: 36
tRF-3
: 35
tRF-5
: 56
Number of genes and transcripts covered by tRFtarget
Human
protein-coding transcripts
: 100,291 (8~109,224 nts)
genes
: 20,355
each gene has about
5
transcript isoforms on average
Mouse
protein-coding transcripts
: 67,125 (9~123,179 nts)
genes
: 22,385
each gene has about
3
transcript isoforms on average
Drosophila
protein-coding transcripts
: 30,588 (152~71,382 nts)
genes
: 13,947
each gene has about
2
transcript isoforms on average
C. elegans
protein-coding transcripts
: 33,552 (30~45,950 nts)
genes
: 20,191
each gene has about
2
transcript isoforms on average
S. pombe
protein-coding transcripts
: 5,146 (75~15,022 nts)
genes
: 5,145
each gene has about
1
transcript
R. sphaeroides
protein-coding transcripts
: 3,111 (81~8,286 nts)
genes
: 3,111
each gene has about
1
transcript
Xenopus tropicalis
protein-coding transcripts
: 54,848 (18~26,729 nts)
genes
: 19,983
each gene has about
3
transcript isoforms on average
Zebrafish
protein-coding transcripts
: 51,259 (10~88,553 nts)
genes
: 30,149
each gene has about
2
transcript isoforms on average
Number of binding interactions included in tRFtarget
Human
RNAhybrid
predictions: 96,579,825 (
3.57
interactions for 1 tRF and 1 transcript on average)
IntaRNA
predictions: 56,704,483 (
2.09
interactions for 1 tRF and 1 transcript on average)
Consensus
predictions (
0.58
interactions for 1 tRF and 1 transcript on average):
15,772,606 predictions from
RNAhybrid
(
16.33%
)
15,772,606 predictions from
IntaRNA
(
27.82%
)
Mouse
RNAhybrid
predictions: 37,414,246 (
3.40
interactions for 1 tRF and 1 transcript on average)
IntaRNA
predictions: 22,660,525 (
2.06
interactions for 1 tRF and 1 transcript on average)
Consensus
predictions (
0.57
interactions for 1 tRF and 1 transcript on average):
6,247,913 predictions from
RNAhybrid
(
16.70%
)
6,247,913 predictions from
IntaRNA
(
27.57%
)
Drosophila
RNAhybrid
predictions: 8,986,901 (
3.42
interactions for 1 tRF and 1 transcript on average)
IntaRNA
predictions: 5,835,485 (
2.22
interactions for 1 tRF and 1 transcript on average)
Consensus
predictions (
0.58
interactions for 1 tRF and 1 transcript on average):
1,535,375 predictions from
RNAhybrid
(
17.08%
)
1,535,375 predictions from
IntaRNA
(
26.31%
)
C. elegans
RNAhybrid
predictions: 4,495,315 (
2.85
interactions for 1 tRF and 1 transcript on average)
IntaRNA
predictions: 3,190,362 (
2.02
interactions for 1 tRF and 1 transcript on average)
Consensus
predictions (
0.67
interactions for 1 tRF and 1 transcript on average):
1,062,987 predictions from
RNAhybrid
(
23.65%
)
1,062,987 predictions from
IntaRNA
(
33.32%
)
S. pombe
RNAhybrid
predictions: 1,916,852 (
3.58
interactions for 1 tRF and 1 transcript on average)
IntaRNA
predictions: 1,188,223 (
2.22
interactions for 1 tRF and 1 transcript on average)
Consensus
predictions (
0.56
interactions for 1 tRF and 1 transcript on average):
301,556 predictions from
RNAhybrid
(
15.73%
)
301,556 predictions from
IntaRNA
(
25.38%
)
R. sphaeroides
RNAhybrid
predictions: 869,821 (
3.21
interactions for 1 tRF and 1 transcript on average)
IntaRNA
predictions: 563,500 (
2.08
interactions for 1 tRF and 1 transcript on average)
Consensus
predictions (
0.58
interactions for 1 tRF and 1 transcript on average):
157,715 predictions from
RNAhybrid
(
18.13%
)
157,715 predictions from
IntaRNA
(
27.99%
)
Xenopus tropicalis
RNAhybrid
predictions: 10,151,269 (
3.63
interactions for 1 tRF and 1 transcript on average)
IntaRNA
predictions: 6,298,323 (
2.25
interactions for 1 tRF and 1 transcript on average)
Consensus
predictions (
0.87
interactions for 1 tRF and 1 transcript on average):
2,445,761 predictions from
RNAhybrid
(
24.09%
)
2,445,761 predictions from
IntaRNA
(
38.83%
)
Zebrafish
RNAhybrid
predictions: 23,688,750 (
3.64
interactions for 1 tRF and 1 transcript on average)
IntaRNA
predictions: 13,701,030 (
2.10
interactions for 1 tRF and 1 transcript on average)
Consensus
predictions (
0.67
interactions for 1 tRF and 1 transcript on average):
4,372,146 predictions from
RNAhybrid
(
18.46%
)
4,372,146 predictions from
IntaRNA
(
31.91%
)
Distribution of free energy of binding interactions
Human
RNAhybrid
: -71.6~-15.0; median -24.1 kcal/mol
IntaRNA
: -47.9~0.0; median -9.2 kcal/mol
Mouse
RNAhybrid
: -56.0~-15.0; median -25.0 kcal/mol
IntaRNA
: -37.8~0.0; median -9.8 kcal/mol
Drosophila
RNAhybrid
: -58.2~-15.0; median -24.6 kcal/mol
IntaRNA
: -40.9~0.0; median -9.2 kcal/mol
C. elegans
RNAhybrid
: -43.5~-15.0; median -22.2 kcal/mol
IntaRNA
: -31.7~0.0; median -9.1 kcal/mol
S. pombe
RNAhybrid
: -55.6~-15.0; median -24.2 kcal/mol
IntaRNA
: -45.5~0.0; median -8.0 kcal/mol
R. sphaeroides
RNAhybrid
: -55.8~-15.0; median -25.5 kcal/mol
IntaRNA
: -40.2~0.0; median -9.9 kcal/mol
Xenopus tropicalis
RNAhybrid
: -58.8~-15.0; median -21.6 kcal/mol
IntaRNA
: -31.6~0.0; median -9.6 kcal/mol
Zebrafish
RNAhybrid
: -54.0~-15.0; median -23.6 kcal/mol
IntaRNA
: -37.1~0.0; median -9.8 kcal/mol
Distribution of maximum complementary length of binding interactions
Human
RNAhybrid
: 6~31; median 7 nts
IntaRNA
: 6~30; median 7 nts
Mouse
RNAhybrid
: 6~25; median 7 nts
IntaRNA
: 6~24; median 7 nts
Drosophila
RNAhybrid
: 6~27; median 7 nts
IntaRNA
: 6~27; median 7 nts
C. elegans
RNAhybrid
: 6~20; median 7 nts
IntaRNA
: 6~22; median 7 nts
S. pombe
RNAhybrid
: 6~30; median 7 nts
IntaRNA
: 6~30; median 7 nts
R. sphaeroides
RNAhybrid
: 6~22; median 7 nts
IntaRNA
: 6~22; median 7 nts
Xenopus tropicalis
RNAhybrid
: 6~22; median 7 nts
IntaRNA
: 6~22; median 7 nts
Zebrafish
RNAhybrid
: 6~22; median 7 nts
IntaRNA
: 6~23; median 7 nts