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-miR827

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

UUAGAUGACCAUCAACGAAAA

miRBase

Precursor miRNA Sequence(5'-3')

CAUGAAUAUAUUUGUUGAUAGUCAUCUAGUGAACAUUGAAAGUCAUAUUAGAUGACCAUCAACGAAAACAUUCAUG

miRBase

Precursor miRNA Structure(5'-3') 

       AUA         A           -A  AU 
CAUGAAU   UUUGUUGAU GUCAUCUAGUG  AC  U
|||||||   ||||||||| |||||||||||  ||  G
GUACUUA   AAGCAACUA CAGUAGAUUAU  UG  A
       CAA         C           AC  AA

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

ptc-miR827      UUAGAUGACCAUCAACGAAAA
mdm-miR827      UUAGAUGACCAUCAACGAACA
                ******************* *