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

ath-miR419

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UUAUGAAUGCUGAGGAUGUUG

miRBase

Precursor miRNA Sequence(5'-3')

AAAUUAUGAAUGCUGAGGAUGUUGUUAUUACGAGCAAUGAGAUGUCUUUUUUUAAAAAAAAAAAUUUGGUUGCUUGCUUGCAAGAGGACAUCUUAGCAUCAAAUUU

miRBase

Precursor miRNA Structure(5'-3') 

     A   A       G     G  ---AUUA        G    GUC     U 
AAAUU UGA UGCUGAG AUGUU UU       CGAGCAAU AGAU   UUUUU U
||||| ||| ||||||| ||||| ||       |||||||| ||||   |||||  
UUUAA ACU ACGAUUC UACAG AG       GUUCGUUG UUUA   AAAAA A
     -   -       -     G  AACGUUC        G    AAA     A

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

ath-miR419      UUAUGAAUGCUGAGGAUGUUG
osa-miR419      UGAUGAAUGCUGACGAUGUUG
                * *********** *******