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

ptc-miR160e-3p

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

GCAUGAGGGGAGUCGAGCAGG

miRBase

Precursor miRNA Sequence(5'-3')

AAGAAUGGCCUGCCUGGCUCCCUGAAUGCCAUCUAGGAAGCUUGUCAAAGAGUGUUGGCAACCUUUCUAUUUGGCAUGAGGGGAGUCGAGCAGGCCAAUU

miRBase

Precursor miRNA Structure(5'-3') 

AAGAA        C         GA      UC       C       AG 
     UGGCCUGC UGGCUCCCU  AUGCCA  UAGGAAG UUGUCAA  A
     |||||||| |||||||||  ||||||  ||||||| |||||||   
     ACCGGACG GCUGAGGGG  UACGGU  AUCUUUC AACGGUU  G
--UUA        A         AG      UU       C       GU

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
                    ** *** ******* ******