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-miR7830

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

UGAUCUAGAGAACCGUUGCU

miRBase

Precursor miRNA Sequence(5'-3')

UUUAAGGGGGUGAUCUAGAGAACCGUUGCUUUUGUUAAAGUUGUUGAGGCUUUUUGUGCAAUUUUGUCCUCUUUCUAUUAUAGAAAAGCAACGGUUCUCUAGAUCACCCAUUAAAG

miRBase

Precursor miRNA Structure(5'-3') 

-     GG                          G UAAAGUUGUU    - UUUUUG 
 UUUAA  GGGUGAUCUAGAGAACCGUUGCUUUU U          GAGG C      U
 |||||  |||||||||||||||||||||||||| |          |||| |      G
 AAAUU  CCCACUAGAUCUCUUGGCAACGAAAA A          CUCC G      A
G     -A                          G UAUUAUCUUU    U UUUUAA

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

gma-miR4406      AUUGAUUCUGAGAGAACCGGUGUA
ptc-miR7830      --UGAUCU--AGAGAACCGUUGCU
                   ****    ********* **