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-miR857

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UUUUGUAUGUUGAAGGUGUAU

miRBase

Precursor miRNA Sequence(5'-3')

UUCGACUCCUACAACAAACUUUCACCAUACAAAAUAAUGAAGAAAACACCCAAAAAGGUUUGAAUGUGUGAGGUUAGUCUCAUUUUUAAAAUAGUGACUUGUUUUUUUUAAAAUGUUUUUUAAGAAUGUUUUUUCAGCUUUUUAUUUUAUUUUAAACCUAAAGGUAGCGUGACUAUUGUGGAGAAAUAAAGAAACAUAAGAAAAAAUAUUUUUGGUUUAUAGUAAGAUGUUGUUUUAAAAUAUAUAUUUAAAAACAAUGUCACUAUUUUAAACGGAAUAUAGACAUUUUCUAUUAAUGAGAUUAACGUCGAGCAUUUGAAUUUCUAGAUUUUUUUCUAAGUUAUUUUGUAUGUUGAAGGUGUAUUGUAGGAAUCGGA

miRBase

Precursor miRNA Structure(5'-3') 

     C        CAA       C             GA      CACCCAAAA            G   G            UUUAAAAUAGUGACUUGUUUUUUUUAAAAUGUUUUUUAAGAAUGUUUUUUCAGCUUUUUAUUUUAUUUUAAACCUAAAGGUAGCGUGACUAUUGUGGAGAAAUA 
UUCGA UCCUACAA   ACUUUCA CAUACAAAAUAAU  AGAAAA         AGGUUUGAAUGU UGA GUUAGUCUCAUU                                                                                                        A
||||| ||||||||   ||||||| |||||||||||||  ||||||         |||||||||||| ||| ||||||||||||                                                                                                         
AGGCU AGGAUGUU   UGGAAGU GUAUGUUUUAUUG  UCUUUU         UUUAAGUUUACG GCU CAAUUAGAGUAA                                                                                                        A
     A        AUG       U             AA      -UUUAGAUC            A   G            UUAUCUUUUACAGAUAUAAGGCAAAUUUUAUCACUGUAACAAAAAUUUAUAUAUAAAAUUUUGUUGUAGAAUGAUAUUUGGUUUUUAUAAAAAAGAAUACAAAG

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

ath-miR857         UUUUGUAUGUUGAA-GGUGUAU--
aly-miR857-3p      UUUUGUAUGUUGAA-GGUGUAU--
csi-miR857         UUUUGAAUGUUGAAUGGUGGCUAU
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