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

pha-miR159b

Organism

Panicum hallii

Species

Mature miRNA Sequence(5'-3')

AGCUGCUCGUUCAUGGUUCC

PmiREN

Precursor miRNA Sequence(5'-3')

GTCGTTTTGAAGGGTGGTACAGCTGCTCGTTCATGGTTCCCACTATCCTATCTCGTCGGCTTTGAGAGAGATTGTGAAATCTAGTGAGATGATTGGTTCGAGATAGGCTTGTGGTTTGCATGACCGAGGAGCTGCATCTTTCGCGTTGCTGACCG

PmiREN

Precursor miRNA Structure(5'-3') 

--   -  --UU         GUA     G    U     GUUC    UAU         --    - U  GA AG     G 
  GUC GU    UGAAGGGUG   CAGCU CUCG UCAUG    CCAC   CCUAUCUCG  UCGG C UU  G  AGAUU U
  ||| ||    |||||||||   ||||| |||| |||||    ||||   |||||||||  |||| | ||  |  |||||  
  CAG CG    GCUUUCUAC   GUCGA GAGC AGUAC    GGUG   GGAUAGAGC  GGUU G AG  U  UCUAA A
GC   U  UUGC         ---     G    C     GUUU    UUC         UU    A U  AG GA     A

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

pha-miR159a           AGCUGCUCGUUCAUGGUUCC-
pha-miR159b           AGCUGCUCGUUCAUGGUUCC-
bdi-miR159b-5p.3      AGCUGCUUGUUCAUGGUUCCC
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