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-miR160b-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GCGUACAGAGUAGUCAAGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

UAUAUAUAGAUUUAAGGUCGUGCCUGGCUCCCUGUAUGCCACAAGAAAACAUCGAUUUAGUUACAAAAUCGAUCACUAGUGGCGUACAGAGUAGUCAAGCAUGACCAAAGCUUUCUUGAUAUAUA

miRBase

Precursor miRNA Structure(5'-3') 

--     AU   --UUUAA        C     - C           A  AAAAC        AG 
  UAUAU  AGA       GGUCGUGC UGGCU C CUGUAUGCCAC AG     AUCGAUUU  U
  |||||  |||       |||||||| ||||| | ||||||||||| ||     ||||||||  U
  AUAUA  UCU       CCAGUACG ACUGA G GACAUGCGGUG UC     UAGCUAAA  A
AU     GU   UUCGAAA        A     U A           A  ---AC        AC

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

osa-miR160a-3p      GCGUGCA-AGGAGCCAAGCAUG-
osa-miR160b-3p      GCGUGCA-AGGAGCCAAGCAUG-
osa-miR160d-3p      GCGUGCG-AGGAGCCAAGCAUG-
aly-miR160c-3p      GCGUACA-AGGAGCCAAGCAUG-
aly-miR160b-3p      GCGUACAGAGUAGUCAAGCAUG-
ath-miR160c-3p      -CGUACA-AGGAGUCAAGCAUGA
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