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

bdi-miR159b-5p.3

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

AGCUGCUUGUUCAUGGUUCCC

miRBase

Precursor miRNA Sequence(5'-3')

UGGUUUUGAGGUGGAGCUCCUAUCAUUCCAAUGAAAGGUCUGUCAGAAGGGUGAUACAGCUGCUUGUUCAUGGUUCCCACUUAUCCUAUCUCCAUUAGAAAGGAGGAGGUAGGCUUGUGGUUUGCAUGACCGAGGAGCCGCAUCCACCCCUUGCCGACCGCUGUUUGGAUUGAAGGGAGCUCUGCAUCUUGAUCUUUC

miRBase

Precursor miRNA Structure(5'-3') 

---U    UU  G           A   U     UGAAA    U  C  AA     -  A A   G    U     GUUC    UUAU         AUUA 
    GGUU  GA GUGGAGCUCCU UCA UCCAA     GGUC GU AG  GGGUG AU C GCU CUUG UCAUG    CCAC    CCUAUCUCC    G
    ||||  || ||||||||||| ||| |||||     |||| || ||  ||||| || | ||| |||| |||||    ||||    |||||||||    A
    CUAG  CU CGUCUCGAGGG AGU AGGUU     CCAG CG UC  CCCAC UA G CGA GAGC AGUAC    GGUG    GGAUGGAGG    G
CUUU    UU  A           A   U     UGUCG    C  U  --     C  C C   G    C     GUUU    -UUC         AGGA

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

pha-miR159a           AGCUGCUCGUUCAUGGUUCC-
pha-miR159b           AGCUGCUCGUUCAUGGUUCC-
bdi-miR159b-5p.3      AGCUGCUUGUUCAUGGUUCCC
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