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-miR1863c

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UAGAAACUUGGCUGAUGCAUUACU

miRBase

Precursor miRNA Sequence(5'-3')

AGCAAUGCAUCAGUUAUGUUUCCUGGAUCAUUAAAUCAUUGAAUGUUUAUCUAGCACCAAUCUGCUGCUGAUCUGUUUGUAGUCAUGAAAAGCACUUUAUGAUCUGAAAGUGCUGGCUGUAUGCCAUGGUUUUCCCCAUUCUAUGGUUAUUAUUGCAAUCGUGACUUAAUAGUGAUGCAAUAAUCAGUAGUGGAUUCGUGUUGGCUCUACUUCGGGUUUAGGAUCAUAGUUAUUAGCUCUGAUACCAUGUUAUUGAUUUAGAAACUUGGCUGAUGCAUUACUUUUGGAGAC

miRBase

Precursor miRNA Structure(5'-3') 

---------  C             U     C       UUAAAUCAUUGAAUGUUUAUCUAGCACCAAUCUGCUGCUGAUCUGUUUGUAGUCAUGAAAAGCACUUUAUGAUCUGAAAGUGCUGGCUGUAUGCCAUGGUUUUCCCCAUU 
         AG AAUGCAUCAGUUA GUUUC UGGAUCA                                                                                                              C
         || ||||||||||||| ||||| |||||||                                                                                                              U
         UC UUACGUAGUCGGU CAAAG AUUUAGU                                                                                                              G
CAGAGGUUU  A             U     -       UAUUGUACCAUAGUCUCGAUUAUUGAUACUAGGAUUUGGGCUUCAUCUCGGUUGUGCUUAGGUGAUGACUAAUAACGUAGUGAUAAUUCAGUGCUAACGUUAUUAUUGGU

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

osa-miR1863c        UAGAAACUUGGCUGAUGC-AUUACU
osa-miR1863b.2      -AGAGACUUGGCUGAUGC-AUUACU
ath-miR3434-5p      -----ACUUGGCUGAUUCUAUUAUU
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