Welcome to the UEA plant small RNA toolkit


This site provides access to some of our software tools for the analysis of small RNA data. Although some of the tools can also be used for animal small RNA data, this site is primarily geared towards the analysis of plant datasets. We will continue to add features to this site and we welcome your feedback to improve the tools.

We recently published a review on RNA silencing in plants, which discusses the computational analysis of large-scale sRNA datasets (link to article).

Latest addition to the toolbox: SiLoMa - generate graphical maps of individual sRNA loci.

Tools available:

Sequence file pre-processing: Sequence adaptor removal and conversion to FASTA format
Filter tool: Filter sequences in large-scale data sets
miRProf: Expression profiles of known miRNAs from large scale sRNA data sets
miRCat: Identification of miRNA sequences in large-scale sRNA data sets
Target prediction tool: Prediction of plant miRNA/ta-siRNA target sequences
SiLoCo: Identification and comparison of sRNA-producing loci in large-scale data sets
SiLoMa: Generate graphical maps of individual sRNA loci.
trans-acting siRNA prediction tool: Detection of phased siRNAs from large-scale sRNA sequence data
RNA folding/annotation: For highlighting sRNA locations on a folded RNA sequence.