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-miR169c-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GGCAAGUCAUCUCUGGCUAUG

miRBase

Precursor miRNA Sequence(5'-3')

GUCUCAUCUAAAGCCUUGAAUGUGGGAAAAAGGCCAUUGUUGUUCAGCCAAGGAUGACUUGCCGGUAGCUUUGUAUAUUUACUCUAUAUUCGGUUUAUAUUAUGGAGAUUAUGCUUUAUAUAUAUAUAUACAUAGUUUUAAUUGAUUUUUUUUCGUACGUACGUAAUCUAAUACGAAAAAGUAUUUACUUAUUUAUAUGUGUGUUGGUGAGAUGUGUAAACAAAGCAAGCCCGGCAAGUCAUCUCUGGCUAUGCAACUGCCUCUUCCUCUCAUUCUAGGCUUACGAUGACAC

miRBase

Precursor miRNA Structure(5'-3') 

  C     UA      U     -U     AA    CAUU     UC     A              --UA       AUAUUUACUCUAUAUUCGGUUUAUAUUAUGGAGAUUAUGCUUUAUAUAUAUAUAUACAUAGUUUUAAUUGA 
GU UCAUC  AAGCCU GAAUG  GGGAA  AGGC    GUUGU  AGCCA GGAUGACUUGCCGG    GCUUUGU                                                                       U
|| |||||  |||||| |||||  |||||  ||||    |||||  ||||| ||||||||||||||    |||||||                                                                       U
CA AGUAG  UUCGGA CUUAC  UCCUU  UCCG    CAACG  UCGGU UCUACUGAACGGCC    CGAAACA                                                                       U
  C     CA      U     UC     -C    ---U     UA     C              CGAA       AAUGUGUAGAGUGGUUGUGUGUAUAUUUAUUCAUUUAUGAAAAAGCAUAAUCUAAUGCAUGCAUGCUUUUU

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

zma-miR169p-3p      GGCAAGUCAUCUGGGGCUACG
aly-miR169c-3p      GGCAAGUCAUCUCUGGCUAUG
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