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

esa-miR5654

Organism

Eutrema salsugineum

Species

Mature miRNA Sequence(5'-3')

AUAAAUCCCAUGCAUCUUCCA

PmiREN

Precursor miRNA Sequence(5'-3')

ACTTGAAGGGAATCCACAAAATAAATCCCATGCATCTTCCACCTTACCAGCCTTGAACATGAAAGGCTTGTAAAATGGAAGATGCTTGGGATTTATTTTGTAGTCTCCTCTTCTAAAA

PmiREN

Precursor miRNA Structure(5'-3') 

-ACUU    -   AU C               U          CC    C      GAA 
     GAAG GGA  C ACAAAAUAAAUCCCA GCAUCUUCCA  UUAC AGCCUU   C
     |||| |||  | ||||||||||||||| ||||||||||  |||| ||||||    
     CUUC CCU  G UGUUUUAUUUAGGGU CGUAGAAGGU  AAUG UCGGAA   G
AAAAU    U   CU A               U          AA    U      AGU

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

bra-miR5654a        ---AUAAAUCCCAAGCAUCAUCCA
bra-miR5654b        ---AUAAAUCCCAAGCAUCAUCCA
ath-miR5654-5p      ---AUAAAUCCCAA-CAUCUUCCA
esa-miR5654         ---AUAAAUCCCAUGCAUCUUCCA
ath-miR5654-3p      UGGAAGAUGCUUUGGGAUUUAUU-
                       *  *  *      **