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

csi-miR156c-3p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

GCUCACUCUCUAUCUGUCACC

miRBase

Precursor miRNA Sequence(5'-3')

UUAAUUAAUUGUAAAAAGGGUAAGAGGAGGUGACAGAAGAGAGUGAGCACACAUGGUAUUUUCUUGCAUGCUUUGAGAUCCUGCUUGAAGCGAUGCGUGCUCACUCUCUAUCUGUCACCCCAACCCCCCCGCCCCCCAAAAAUCUCCCU

miRBase

Precursor miRNA Structure(5'-3') 

------UUAAUUAAUUGUAAAAA    AAGA  A         -             A   GGUAUUUUCUUGCAUGCU 
                       GGGU    GG GGUGACAGA AGAGAGUGAGCAC CAU                  U
                       ||||    || ||||||||| ||||||||||||| |||                   
                       CCCA    CC CCACUGUCU UCUCUCACUCGUG GUA                  A
UCCCUCUAAAAACCCCCCGCCCC    ---A  -         A             C   GCGAAGUUCGUCCUAGAG

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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