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-miR156f-3p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

GCUCACUCUCUAUCCGUCACC

miRBase

Precursor miRNA Sequence(5'-3')

GAGUGGUGAGGAAUUGAUGGUGACAGAAGAGAGUGAGCACACAUGGUGGCUUUCUUGCAUAUUUGAAGGUUCCAUGCUUGAAGCUAUGUGUGCUCACUCUCUAUCCGUCACCCCCUUCUCUCCCUCUCCCUC

miRBase

Precursor miRNA Structure(5'-3') 

   U  U    AAUU  ---U      A  -                    GGCU   UU    AUUUG 
GAG GG GAGG    GA    GGUGAC GA AGAGAGUGAGCACACAUGGU    UUC  GCAU     A
||| || ||||    ||    |||||| || ||||||||||||||||||||    |||  ||||     A
CUC CC CUCC    CU    CCACUG CU UCUCUCACUCGUGUGUAUCG    AAG  CGUA     U
   -  U    CUCU  UCCC      C  A                    ----   UU    CCUUG

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

mtr-miR156c-3p      UGCUUACUCUCUAUCUGUCACC
aly-miR156e-3p      -GCUUACUCUCUCUCUGUCACC
stu-miR156g-3p      -GCUUACUCUCUAUCUGUCACC
sly-miR156e-3p      -GCUUACUCUCUAUCUGUCACC
aly-miR156f-3p      -GCUCACUCUCUAUCUGUCACC
ath-miR156f-3p      -GCUCACUCUCUAUCCGUCACC
csi-miR156c-3p      -GCUCACUCUCUAUCUGUCACC
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