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

osa-miR6251

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UGUGUAGCCACAUUGUAAGGG

miRBase

Precursor miRNA Sequence(5'-3')

UGGCAUGCCAUGUGUAGCCACAUUGUAAGGGAGUCCUUGUGCACAUGGUCAAUCUCGCAGAAAGCCCACUGCAAUCCAAAUCUUCUUCACGAUUGUUCCUAUUCACCAAAUCACCCGUCUUCUCGAAUGACCGCCCACCAUUUCCCUCUGUUGCUGUUGCUAACAUCCAUGGCCCAGGGACCCACUUGCAGCGUGGCUACAUGUGGCAUGCCAC

miRBase

Precursor miRNA Structure(5'-3') 

-                     A       -  A       U  A     UCAAUCUCGCAGAAAGCCCACUGCAAUCCAAAUCUUCUUCACGAUUGUUCCUAUUCAC 
 UGGCAUGCCAUGUGUAGCCAC UUGUAAG GG GUCCUUG GC CAUGG                                                          C
 ||||||||||||||||||||| ||||||| || ||||||| || |||||                                                           
 ACCGUACGGUGUACAUCGGUG GACGUUC CC CAGGGAC CG GUACC                                                          A
C                     C       A  -       C  -     UACAAUCGUUGUCGUUGUCUCCCUUUACCACCCGCCAGUAAGCUCUUCUGCCCACUAA

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

atr-miR8579      GUGAUGUAGCCCCGUUUAAGAAGG
osa-miR6251      --UGUGUAGCCACAUUGUAAGGG-
                     ******* * **  *   *