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

bra-miR391b

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UUCGCAGGAGAGAUAGCGCCA

PmiREN

Precursor miRNA Sequence(5'-3')

AACTGCACATATAGATTTGCTTCGCAGGAGAGATAGCGCCATCACATTTTCTAAGAGTTTAGCTGATGGTGATGACGGTATCTCTCCTACGTAGCTATCCTTATATGTGCATCTA

PmiREN

Precursor miRNA Structure(5'-3') 

-AAC          --   UU   U  C          G  C      AU  -U    G 
    UGCACAUAUA  GAU  GCU CG AGGAGAGAUA CG CAUCAC  UU  CUAA A
    ||||||||||  |||  ||| || |||||||||| || ||||||  ||  ||||  
    ACGUGUAUAU  CUA  CGA GC UCCUCUCUAU GC GUAGUG  AG  GAUU U
AUCU          UC   -U   U  A          G  A      GU  UC    U

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

bra-miR391a        UUCGCAGGAGAGAUAGCGCCA
bra-miR391b        UUCGCAGGAGAGAUAGCGCCA
cru-miR391         UUCGCAGGAGAGAUAGCGCCA
aly-miR391-5p      UUCGCAGGAGAGAUAGCGCCA
ath-miR391-5p      UUCGCAGGAGAGAUAGCGCCA
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