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

sly-miR156e-3p

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

GCUUACUCUCUAUCUGUCACC

miRBase

Precursor miRNA Sequence(5'-3')

UGGUGGUGAUAGAAGAGAGUGAGCACACAUGGUGUUUUCUUGCAUGAUGUUUAUAUAUAUAUAUGCUUGAAACUAUGUGUGCUUACUCUCUAUCUGUCACCCCCA

miRBase

Precursor miRNA Structure(5'-3') 

   U         -                    GUU   UU     -    UU 
UGG GGUGAUAGA AGAGAGUGAGCACACAUGGU   UUC  GCAUG AUGU  A
||| ||||||||| ||||||||||||||||||||   |||  ||||| ||||   
ACC CCACUGUCU UCUCUCAUUCGUGUGUAUCA   AAG  CGUAU UAUA  U
   C         A                    ---   UU     A    UA

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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