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-miR398c-5p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

AGGGUUGAUAUGAGAACACAC

miRBase

Precursor miRNA Sequence(5'-3')

UGGAUCUCGACAGGGUUGAUAUGAGAACACACGAGCAAUCAACGGCUAUAACGACGCUACGUCAUUGUUACAGCUCUCGUUUCAUGUGUUCUCAGGUCACCCCUGCUGAGCUCUU

miRBase

Precursor miRNA Structure(5'-3') 

U   U    A     U    A         -----     CAAUCAAC    A    ---      
 GGA CUCG CAGGG UGAU UGAGAACAC     ACGAG        GGCU UAAC   GACGC 
 ||| |||| ||||| |||| |||||||||     |||||        |||| ||||   |||| U
 UCU GAGU GUCCC ACUG ACUCUUGUG     UGCUC        UCGA AUUG   CUGCG 
U   C    C     C    G         UACUU     --------    C    UUA

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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