TarDB: A miRNA Target Database in Plants.


TarDB employs cross-species conservation filter, degradome and sRNA-seq data to identify high-confidence miRNA targets in plants.



miRNA ID

mtr-miR160f

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

GCGUGAAGGGAGUCAAGCAGG

miRBase

Precursor miRNA Sequence(5'-3')

AAUGUUGUGUUUGCCUGGCUCCCUGCAUGCCAUAUAAGAGGCUUCUCAAAAUGGUUGACGACCCUUUUACUUGGCGUGAAGGGAGUCAAGCAGGCAGCCUAAUC

miRBase

Precursor miRNA Structure(5'-3') 

-AAUGUUG       C         G       UA       C  C    A 
        UGUUUGC UGGCUCCCU CAUGCCA  UAAGAGG UU UCAA A
        ||||||| ||||||||| |||||||  ||||||| || |||| U
        ACGGACG ACUGAGGGA GUGCGGU  AUUUUCC AG AGUU U
CUAAUCCG       A         A       UC       C  C    G

Homologous Mature miRNAs   miRNAs are clustered by CD-HIT with sequence identity of >85% and word size of 5.

ptc-miR160e-3p      GCAUGAGGGGAGUCGAGCAGG
mtr-miR160f         GCGUGAAGGGAGUCAAGCAGG
                    ** *** ******* ******