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

bra-miR2111f

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

GACCUCAGGAUGCGGAUUACC

PmiREN

Precursor miRNA Sequence(5'-3')

TATTGGTGAGGACCGGGTAATCTGCATCCTGGGGTTTAAGGTTTAAGTACACGCAAAAATATGCGTACGCATATATTTGTGTGTGTTAGTATAGCTTTTAGACCTCAGGATGCGGATTACCTCTTCCTTACAATACG

PmiREN

Precursor miRNA Structure(5'-3') 

--     G      CC                          -   ----   G          A      G 
  UAUUG UGAGGA  GGGUAAUCUGCAUCCUGGGGUUUAAG GUU    UAA UACACGCAAA AUAUGC U
  ||||| ||||||  |||||||||||||||||||||||||| |||    ||| |||||||||| ||||||  
  AUAAC AUUCCU  UCCAUUAGGCGUAGGACUCCAGAUUU CGA    AUU GUGUGUGUUU UAUACG G
GC     -      UC                          U   UAUG   -          A      C

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

aly-miR2111a-3p      GUCCUCGGGAUGCGGAUUACC
aly-miR2111c-3p      GUCCUCGGGAUGCGGAUUACC
ath-miR2111a-3p      GUCCUCGGGAUGCGGAUUACC
bra-miR2111f         GACCUCAGGAUGCGGAUUACC
fve-miR2111b-3p      GCCCUUGGGAUGCGGAUUACC
bra-miR2111c         AUCCUCGGGAUGCGGAUUACC
aly-miR2111b-3p      AUCCUCGGGAUACAGAUUACC
bra-miR2111d         AUCCUCGGGACACAGAUUACC
ath-miR2111b-3p      AUCCUCGGGAUACAGUUUACC
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