Table 1

Summary of target prediction tools for plant miRNA

Method

Link

AUTS1

Limit2

Spe3

Ref


miRU

N/A

N

1 miR

N

[57]

psRNATarget

http://plantgrn.noble.org/psRNATarget/?function=3 webcite

Y

20 M/200 M

EH

[45]

TAPIR

http://bioinformatics.psb.ugent.be/webtools/tapir/ webcite

Y

50 kb/40 M

H

[13]

UEA_sRNA

http://srna-tools.cmp.uea.ac.uk/plant/cgi-bin/srna-tools.cgi?rm=input_form&tool=target webcite

N

50 miRs

S

[42]

WMD3

http://wmd3.weigelworld.org/cgi-bin/webapp.cgi?page=TargetSearch;project=stdwmd webcite

N

1 miR

H

[41]

TargetAlign

http://www.leonxie.com/targetAlign.php# webcite

Y

locale

ES

[37]

Targetfinder

http://jcclab.science.oregonstate.edu/node/view/56334 webcite

Y

locale

N

[58]


1 AUTS - Accepts User-supplied Transcript Sequences.

2 Input limitations. Limitations for miRNA and transcript input are on the left and right sides of the slash.

3 Running speed at the time of testing. E-Extremely, H-High (≤ 5 min), N-Normal (5-30 min), S-Slow (≥ 30 min).

Ding et al. BMC Genomics 2012 13(Suppl 3):S3   doi:10.1186/1471-2164-13-S3-S3

Open Data