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

aly-miR156e-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GCUUACUCUCUCUCUGUCACC

miRBase

Precursor miRNA Sequence(5'-3')

GUAGAGUGUGAAAGGUAAGAGGAGGUGACAGAAGAGAGUGAGCACACAUGGUGGUUUCUUGCAUGCUUUUUUUUAAUUAGGGCUUCAUGCUUGAAGCUAUGUGUGCUUACUCUCUCUCUGUCACCCCUUCUCUCUCUCUUUUCAAAUUAC

miRBase

Precursor miRNA Structure(5'-3') 

GUAG   G       UA    -  ---         -                    GGU   UU    ---     UUU 
    AGU UGAAAGG  AGAG GA   GGUGACAGA AGAGAGUGAGCACACAUGGU   UUC  GCAU   GCUUU   U
    ||| |||||||  |||| ||   ||||||||| ||||||||||||||||||||   |||  ||||   |||||   U
    UUA ACUUUUC  UCUC CU   CCACUGUCU UCUCUCAUUCGUGUGUAUCG   AAG  CGUA   CGGGA   U
--CA   A       UC    U  UCC         C                    ---   UU    CUU     UUA

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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