miRU: Plant miRNA Potential Target Finder
http://bioinfo3.noble.org/miRNA/miRU.htm
This website allows users to predict plant miRNA target genes. By entering a small RNA sequence (19-28nt) the program will report all potential complimentary sequences.
PlantGDB
http://www.plantgdb.org/
This website is dedicated entirely to plant miRNA and provides many useful tools such as sequence browser & assemblies, genome browser, and other tools and datasets.
PMRD: plant miRNA Database
http://bioinformatics.cau.edu.cn/PMRD/
This site offers a complete list of all publicly known plant miRNA sequences. The database is composed of a total of 8,433 sequences including all known sequences in the miRBase database.
UPC: A Resource for Predicting and Comparing Plant microRNAs
http://www3a.biotec.or.th/micropc/index.html
Here users can predict and compare plant miRNA sequences. This site includes 128 miRNA families, 125 plant species, and 2,995 protein targets.
The UEA plant sRNA toolkit
http://srna-tools.cmp.uea.ac.uk/targets/
Users can input sequences up to 50 nucleotides in length in FASTA format to run target predictions for their sequence dataset.
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{ 2 comments… read them below or add one }
now you can also use starbase web tool to explore the miR-mRNa interaction map which uses degradome data from arabidopsis and grape, to find the potential target for miR sequences. There by giving you more perfect targets.As starbase use degradome data and useing low penalty scores for your search delimits the false prediction which is not possible in other computional methods.
you can access the starbase web tools to explore miRNA-target interaction maps at follow web site: http://starbase.sysu.edu.cn/