The applications listed here are available for use in the Discovery Environment and are documented in: Discovery Environment Manual.

Discovery Environment Applications List

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miRanda 3.3a


miRanda is an algorithm for the detection of potential microRNA target sites in genomic sequences. miRanda reads RNA sequences (such as microRNAs) from file1 and genomic DNA/RNA sequences from file2. Both of these files should be in FASTA format.

Quick Start

Test Data


Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> miranda


Input File(s)

Use these files as input:

  • miRNA.fa as the micro-RNA fasta file
  • mRNA_100.fa as the genomic DNA/RNA fasta

Parameters Used in App

Use only default parameters.

Output File(s)

When run with the settings as files above you should get a file called 'predictions.txt'. 

Tool Source for App


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