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

ptc-miR6445a

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

UUCAUUCCUCUUCCUAAAAUGG

miRBase

Precursor miRNA Sequence(5'-3')

UCUCUUUGCCACGUUGUUCAUUCCUCUUCCUAAAAUGGCUUCUCCUUCAAUUUUAAAAAAAAUAAAAAUUAAAGGAGAAUCCAAUAUGAAAUGAGAAGCUAUUUUAGGAAGGGAAUGAAUACGGUGUCGGUGUUAUAAGAGA

miRBase

Precursor miRNA Structure(5'-3') 

      -------  C   GU          U                   -C    AUUUUAAAAAAAAUAAA 
UCUCUU       UG CAC  UGUUCAUUCC CUUCCUAAAAUGGCUUCUC  UUCA                 A
||||||       || |||  |||||||||| |||||||||||||||||||  ||||                 A
AGAGAA       GC GUG  AUAAGUAAGG GAAGGAUUUUAUCGAAGAG  AAGU                 A
      UAUUGUG  U   GC          -                   UA    AUAACCUAAGAGGAAAU

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

ptc-miR6445a      UUCAUUCCUCUUCCUAAAAUGG
mes-miR6445       UUCAUUCCUCUUCCUAAAAUGG
ptc-miR6445b      UUCAUUCCUCUUCCUAAAAUGG
                  **********************