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

osa-miR160d-3p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

GCGUGCGAGGAGCCAAGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

GGGGAUAUGCCUGGCUCCCUGUAUGCCACUCGCGUAGCUGCCAAACUCAGUUGAAACAACUGCCUUCUCCCGGCGAGAUUCAGGCAUUGUGUUCGUACGUUUGGCUCUACUGCGGAUGGCGUGCGAGGAGCCAAGCAUGACC

miRBase

Precursor miRNA Structure(5'-3') 

GG  A     C       C         C    -    CU       UCA  -    -    C     ---    C 
  GG UAUGC UGGCUCC UGUAUGCCA UCGC GUAG  GCCAAAC   GU UGAA ACAA UGCCU   UCUC C
  || ||||| ||||||| ||||||||| |||| ||||  |||||||   || |||| |||| |||||   |||| G
  CC GUACG ACCGAGG GCGUGCGGU GGCG CAUC  CGGUUUG   CA GCUU UGUU ACGGA   AGAG G
--  A     A       A         A    U    -U       ---  U    G    -     CUU    C

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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