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

zma-miR164c-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

CAUGUGCCCUUCUUCUCCAUC

miRBase

Precursor miRNA Sequence(5'-3')

UGGCGAGGUGCGCGCGGUGGAGAAGCAGGGCACGUGCAUUCUUUCCGUCGCCGGCCGGCUUGGCAGCGGCCGGCGGCCCGGCUCUCGCAGUCACGCGUACGUCGCCUGAGCGGCGCGCGCGAGAGAGAGAGACACGGCAGGUCGUCGCCGGCGCGGCUAACUGGUGCAGGUGCAGCAGCUAGCUUCUGAAACCCAGCCAGCCAGCCAGCCGGCCGGCCGGCCGAUCGAUGCGUGCAUGUGCCCUUCUUCUCCAUCGGGCACGCCUCGCCU

miRBase

Precursor miRNA Structure(5'-3') 

U         C  G           C             U UU  C    -          U   AGCGGCCGGCGGCCCGGCUCUCGCAGUCACGCGUACGUCGCCUGAGCGGCGCGCGCGAGAGAGAGAGACA 
 GGCGAGGUG GC CGGUGGAGAAG AGGGCACGUGCAU C  UC GUCG CCGGCCGGCU GGC                                                                      C
 ||||||||| || ||||||||||| ||||||||||||| |  || |||| |||||||||| |||                                                                      G
 CCGCUCCGC CG GCUACCUCUUC UCCCGUGUACGUG G  AG UAGC GGCCGGCCGG CCG                                                                      A
U         A  G           U             C -U  C    C          -   ACCGACCGACCGACCCAAAGUCUUCGAUCGACGACGUGGACGUGGUCAAUCGGCGCGGCCGCUGCUGGAC

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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