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-miR169f-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GCAAGUUGACCUUGGCUCUGC

miRBase

Precursor miRNA Sequence(5'-3')

UGUAUCAGAGGGUCUUGCAUGAAGGAAUAAAGAAUGGAAUUGAGCCAAGGAUGACUUGCCGGUUUAAACACAACCGGAUUAUGACCAUUGAUUUGGUCUCAUUCACAAUCUGUUGAUUCGUGUCUGGCAAGUUGACCUUGGCUCUGCUUCGUUCUCUAUUCUUCCAUGUUAGAUUCCAGAUAUA

miRBase

Precursor miRNA Structure(5'-3') 

      A A      U     A       A        AUU         AU          UUUAAACA    C     ------AU     UU 
UGUAUC G GGGUCU GCAUG AGGAAUA AGAAUGGA   GAGCCAAGG  GACUUGCCGG        CAAC GGAUU        GACCA  G
|||||| | |||||| ||||| ||||||| ||||||||   |||||||||  ||||||||||        |||| |||||        |||||   
AUAUAG C CUUAGA UGUAC UUCUUAU UCUUGCUU   CUCGGUUCC  UUGAACGGUC        GUUG UCUAA        CUGGU  U
      A -      U     C       C        CGU         AG          UGUGCUUA    -     CACUUACU     UU

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

aly-miR169e-3p      GCAAGUUGACCUUGGCUCUGU
aly-miR169g-3p      GCAAGUUGACCUUGGCUCUGU
aly-miR169d-3p      GCAAGUUGACCUUGGCUCUGU
ath-miR169f-3p      GCAAGUUGACCUUGGCUCUGC
aly-miR169f-3p      GCAAGUUGACCUUGGCUCUGC
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