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-miR398b-5p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

AGGGUUGAUAUGAGAACACAC

miRBase

Precursor miRNA Sequence(5'-3')

UGGAUCUCGACAGGGUUGAUAUGAGAACACACGAGUAAUCAACGGCUGUAAUGACGCUACGUCAUUGUUACAGCUCUCGUUUUCAUGUGUUCUCAGGUCACCCCUGCUGAGCUCUU

miRBase

Precursor miRNA Structure(5'-3') 

U   U    A     U    A          C   U   CAAC       ---        
 GGA CUCG CAGGG UGAU UGAGAACACA GAG AAU    GGCUGUA   AUGACGC 
 ||| |||| ||||| |||| |||||||||| ||| |||    |||||||   |||||| U
 UCU GAGU GUCCC ACUG ACUCUUGUGU CUU UUG    UCGACAU   UACUGCG 
U   C    C     C    G          A   -   -CUC       UGU

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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