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-miR1507-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

CCUCGUUCCAUACAUCAUCUAG

miRBase

Precursor miRNA Sequence(5'-3')

ACCAUAAACUCCAAUUAAUGUGGUGUUGAGUAGAGUUGUAUGGAACGAAAGAUGGGAAUUUCUUGUUGAAUUCUAUUCAUUCAAUUUUCCCUCCCUCGUUCCAUACAUCAUCUAGCCAAUACUGUGUUAACAAUUGUCUUUGGU

miRBase

Precursor miRNA Structure(5'-3') 

    UAA  UCCAA              AG    - U            AA  U     UUUC   -U       
ACCA   AC     UUAAUGUGGUGUUG  UAGA G UGUAUGGAACGA  GA GGGAA    UUG  UGAAUU 
||||   ||     ||||||||||||||  |||| | ||||||||||||  || |||||    |||  ||||| C
UGGU   UG     AAUUGUGUCAUAAC  AUCU C ACAUACCUUGCU  CU CCCUU    AAC  ACUUAU 
    UUC  UUAAC              CG    A U            CC  -     --UU   UU

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

mtr-miR1507-3p       CCUCGUUCCAUACAUCAUCUAG
gma-miR1507c-3p      CCUCAUUCCAAACAUCAUCU--
                     **** ***** *********