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

zma-miR164d-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

CACGUGGUCUCCUUCUCCAU

miRBase

Precursor miRNA Sequence(5'-3')

UGAGUGAGAAGGACCACGCUGGAGAAGCAGGGCACGUGCAUGCACAUACGCCAUUCUCGAUCUCUCCUCUCCACCACUACUGCAUCUAGCUAUCUCCAUGGAUGGAUGUACGUAGCUCGGACUGGAUCGAUCGGAGAAGCAAUAAGCUAGCGAGCUCAUGCAUGCUGGCUGUGCACGCACGUGGUCUCCUUCUCCAUCACGGUUCUUUCUCACUUC

miRBase

Precursor miRNA Structure(5'-3') 

U            -  ACGC        C   G       A     AUACGCCAUUCUCGAUCUCUCCUCUCCACCACUACUGCAUCUAGCUAUCUCCAUGGAUGGA 
 GAGUGAGAAGGA CC    UGGAGAAG AGG CACGUGC UGCAC                                                             U
 |||||||||||| ||    |||||||| ||| ||||||| |||||                                                             G
 UUCACUCUUUCU GG    ACCUCUUC UCU GUGCACG ACGUG                                                             C
C            U  CACU        C   G       C     UCGGUCGUACGUACUCGAGCGAUCGAAUAACGAAGAGGCUAGCUAGGUCAGGCUCGAUGCA

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

csi-miR164c-3p      CACGCGCUCCCCUUCUCCAAC
csi-miR164d-3p      CACGCGCUCCCCUUCUCCAAC
csi-miR164b-3p      CACGCGCUCCCCUUCUCCAAC
aly-miR164a-3p      CACGUACUCCCCUUCUCCAAC
fve-miR164a-3p      CACGUGCUCCCCUUCUCCAAC
zma-miR164g-3p      CACGUGCUCCCCUUCUCCACC
zma-miR164f-3p      CACGUGCGCUCCUUCUCCAAC
bdi-miR164c-3p      CAUGUGCGCUCCUUCUCCAGC
zma-miR164d-3p      CACGUGGUCUCCUUCUCCAU-
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