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

mtr-miR156c-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

UGCUUACUCUCUAUCUGUCACC

miRBase

Precursor miRNA Sequence(5'-3')

GGUGGUGACAGAAGAGAGUGAGCACACAUGGUGUUUUCUUGCACGAUUAUGUUUCCUGCUUGAAGCUAUAUGUGCUUACUCUCUAUCUGUCACCCCAC

miRBase

Precursor miRNA Structure(5'-3') 

--  U         -              C     GUU   UU   C  UU 
  GG GGUGACAGA AGAGAGUGAGCACA AUGGU   UUC  GCA GA  A
  || ||||||||| |||||||||||||| |||||   |||  ||| ||  U
  CC CCACUGUCU UCUCUCAUUCGUGU UAUCG   AAG  CGU CU  U
CA  -         A              A     ---   UU   C  UU

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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