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

aly-miR398b-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GGGUUGAUAUGAGGACACAUG

miRBase

Precursor miRNA Sequence(5'-3')

GAUAUAUUUUGAAGGUAGUGGAUCUCGACAGGGUUGAUAUGAGGACACAUGUGUAAUCAACGGCUGUAAUGACGCCACGUCAUUGUUACAUGUGUUCUCAGGUCACCCCUGCUGAGCUCUUUCUCUACCGACCAUCUUUAUC

miRBase

Precursor miRNA Structure(5'-3') 

    UAUUUUGAA     ---U   U    A     U    A              UAAUCAACGGCUG          
GAUA         GGUAG    GGA CUCG CAGGG UGAU UGAGGACACAUGUG             UAAUGACGC 
||||         |||||    ||| |||| ||||| |||| ||||||||||||||             |||||||| C
CUAU         CCAUC    UCU GAGU GUCCC ACUG ACUCUUGUGUACAU             GUUACUGCG 
    UUCUACCAG     UCUU   C    C     C    G              ------------U

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

ath-miR398b-5p      AGGGUUGAUAUGAGAACACAC-
ath-miR398c-5p      AGGGUUGAUAUGAGAACACAC-
aly-miR398b-5p      -GGGUUGAUAUGAGGACACAUG
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