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-miR166d-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GGAAUGUUGUCUGGUUGGAGA

miRBase

Precursor miRNA Sequence(5'-3')

UCGCUGGUGCAUGUAUGGCGCAGUUGAGGGGAAUGUUGUCUGGUUGGAGACCUAGCUAGCAGCUAGCACGGAUCAUCCAUAGAUCGAUUCGACGCUGCAUAUGCGCGCGGUUUCGGACCAGGCUUCAUUCCCCCCAACUCUCAACUCGAUCGAUCUUCUUCGCUC

miRBase

Precursor miRNA Structure(5'-3') 

------UCGCUGGUGCAUGUAUGGCGCAGUUGAGGGGAAUGUUGUCUGGUUGGAGACCUAGCUAGCAGCUAGCA      -   C 
                                                                          CGGAUC AUC A
                                                                          |||||| |||  
                                                                          GCUUAG UAG G
CUCGCUUCUUCUAGCUAGCUCAACUCUCAACCCCCCUUACUUCGGACCAGGCUUUGGCGCGCGUAUACGUCGCA      C   A

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

zma-miR166g-5p      -GGAAUGUUGUCUGGUUGGAGA-
bdi-miR166d-5p      -GGAAUGUUGUCUGGUUGGAGA-
csi-miR166c-5p      GGGAAUGUUGUCUGGUUCGAG--
osa-miR166c-5p      -GGAAUGUUGUCUGGUCCGAG--
csi-miR166g-5p      --GAAUGCUGUCUGGUUCGAGAC
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