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

bdi-miR164a-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

CAUGUGCCCUUCUUCUCCACC

miRBase

Precursor miRNA Sequence(5'-3')

GAGUGGACAUAUGAGGCGAGGCGCGCGAGGUGGAGAAGCAGGGCACGUGCAUUCGUUCCAGCUCGCCGCCGGUGUGCCGCGCCGCGGCCUGGGCGCGCGUGUCGCCCGAGCGGCCGGCCAUGCGCGUGUGUGUGCAUGCAUGUGCCCUUCUUCUCCACCGCGCAAGCCUCGCCUGCGAACGCGCGCGCACGCC

miRBase

Precursor miRNA Structure(5'-3') 

---------------GAGUGGACAUAUGAGGCGAGGCGCGCGAGGUGGAGAAGCAGGGCACGUGCAUUCGUUCCA   C     -   U   C     -   GG 
                                                                           GCU GCCGC CGG GUG CGCGC CGC  C
                                                                           ||| ||||| ||| ||| ||||| |||  C
                                                                           CGG CGGCG GCC CGC GUGCG GCG  G
CCGCACGCGCGCGCAAGCGUCCGCUCCGAACGCGCCACCUCUUCUUCCCGUGUACGUACGUGUGUGUGCGCGUAC   C     A   -   U     C   GG

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

ath-miR164b-3p      CAUGUGCCCAUCUUCACCAUC
aly-miR164b-3p      CAUGUGCCCAUCUUCACCAUC
zma-miR164c-3p      CAUGUGCCCUUCUUCUCCAUC
zma-miR164h-3p      CAUGUGCCCUUCUUCUCCAUC
csi-miR164a-3p      CAUGUGCCCUUCUUCCCCAUC
zma-miR164b-3p      -AUGUGCCCAUCUUCUCCACC
bdi-miR164a-3p      CAUGUGCCCUUCUUCUCCACC
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