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-miR173a-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UUCGCUUGCAGAGAGAAAUCAC

miRBase

Precursor miRNA Sequence(5'-3')

GGUGACUAAGUACUUUCGCUUGCAGAGAGAAAUCACAGUGGUCAAAAGUUAAAGUCUCUUUCCUCUGUGAUUCUCUGUGCAAGUGGAAGAGCUUGCUCCC

miRBase

Precursor miRNA Structure(5'-3') 

  U  C     A            G      A      U  UCA    UUA 
GG GA UAAGU CUUUCGCUUGCA AGAGAA UCACAG GG   AAAG   A
|| || ||||| |||||||||||| |||||| |||||| ||   ||||   A
CC CU GUUCG GAAGGUGAACGU UCUCUU AGUGUC CC   UUUC   C
  -  C     A            G      -      U  ---    UCU

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

cru-miR173          ---UUCGCUUGCAGAGAGAAAUCAC
ath-miR173-5p       ---UUCGCUUGCAGAGAGAAAUCAC
aly-miR173a-5p      ---UUCGCUUGCAGAGAGAAAUCAC
aly-miR173b-5p      ---UUCGCUUGCAGAGAGAAAUCAC
ath-miR173-3p       UGAUUCUCUGUGUAAGCGAAA----
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