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

ath-miR837-3p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

AAACGAACAAAAAACUGAUGG

miRBase

Precursor miRNA Sequence(5'-3')

UUUUUGAUAAAUACUUUUGUUUGCUUACAAGUAUAAAGUCAUCAUGUUUUUUUCAUCAGUUUCUUGUUCGUUUCAAAAUUAUGAUUUUUGUUUACUUACACUCAUAAUCUUGAAACGAACAAAAAACUGAUGGAAAAACAUGAGGACUUUAUACUUGUAAAUAAAUAAAAAUAUUUAUUAGAAA

miRBase

Precursor miRNA Structure(5'-3') 

U            C         C                A           U         C             A       UUUU   UU 
 UUUUGAUAAAUA UUUUGUUUG UUACAAGUAUAAAGUC UCAUGUUUUUU CAUCAGUUU UUGUUCGUUUCAA AUUAUGA    UGU  A
 |||||||||||| ||||||||| |||||||||||||||| ||||||||||| ||||||||| ||||||||||||| |||||||    |||   
 AAGAUUAUUUAU AAAAUAAAU AAUGUUCAUAUUUCAG AGUACAAAAAG GUAGUCAAA AACAAGCAAAGUU UAAUACU    ACA  U
A            A         A                G           -         A             C       ---C   UU

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

aly-miR837-3p      AAACGAACAAGAAACUGAUGA-----
ath-miR837-3p      AAACGAACAAAAAACUGAUGG-----
ath-miR837-5p      -----AUCAGUUUCUUGUUCGUUUCA
                        * **      ** *