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

ppe-miR477-3p

Organism

Prunus persica

Species

Mature miRNA Sequence(5'-3')

CGAAGCCUUUGGGGAGAGUAA

miRBase

Precursor miRNA Sequence(5'-3')

AAGGCAUUUUUGUUGCUCACUCUCCCUCAAAGGCUUCUAGCAAUGUCAGAAAUGGCGAGCUCGAAGCCUUUGGGGAGAGUAAACAAAAAAUGUCUU

miRBase

Precursor miRNA Structure(5'-3') 

           -   GCUC        U          U   AA     G 
AAGGCAUUUUU GUU    ACUCUCCC CAAAGGCUUC AGC  UGUCA A
||||||||||| |||    |||||||| |||||||||| |||  |||||  
UUCUGUAAAAA CAA    UGAGAGGG GUUUCCGAAG UCG  GCGGU U
           A   ---A        -          C   -A     A

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

gma-miR5036        AGAGGCCCUUGGGGAGGAGUAA
ppe-miR477-3p      CGAAGCCUUUGGGGAG-AGUAA
                    ** *** ******** *****