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

gma-miR4408

Organism

Glycine max

Species

Mature miRNA Sequence(5'-3')

UAACAACAUUGGAUGAGGGUUGGA

miRBase

Precursor miRNA Sequence(5'-3')

CCAAUCGGAAUCUUUCUUCCAACCUACAUCCAAUGUUGUUAAAUGACCAUUAUAGCGCCACCAUUAUGCUAGAACAUUAUGGCGGCACCAUAAAGGUUUUUUAACAACAUUGGAUGAGGGUUGGAAGAAAUAUUUCAAUUG

miRBase

Precursor miRNA Structure(5'-3') 

C    C     C             A                 U    A    A C   A    U   CU 
 CAAU GGAAU UUUCUUCCAACCU CAUCCAAUGUUGUUAAA GACC UUAU G GCC CCAU AUG  A
 |||| ||||| ||||||||||||| ||||||||||||||||| |||| |||| | ||| |||| |||   
 GUUA CUUUA AAAGAAGGUUGGG GUAGGUUACAACAAUUU UUGG AAUA C CGG GGUA UAC  A
-    A     U             A                 U    A    C A   C    U   AA

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

gma-miR4408       UAACAACAUUGGAUGAGGGUUGGA
pha-miRN2518      ---UCCAACCCGAUCUAAGCUGUU
                         *   ***    * **