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miRNA Target Prediction Based On Sequence

Hello Biostars,

What are some existing tools/programs that can predict potential miRNA targets based on mature miRNA sequence?

Ideally, I would like to find something contains a built-in 3'UTR alignment of genes and that allows me to input a list of miRNA sequences in a fasta format and a list of gene names (from RefSeq as an example).

Thanks in advance.

mirna sequence rna-seq prediction
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updated by Ram Ram • written by Tom A • Tom A

1 answer

You could try TargetSpy. It doesn't even need alignments. That means it can also find species-specific target sites.

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written by David Langenberger David Langenberger

There is a stand-alone version on the page under 'downloads'.

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written by David Langenberger David Langenberger

Thanks!

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updated by Ram Ram • written by Tom A • Tom A

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