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-miR160c-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

GCGUGCAUGGUGCCAAGCAUA

miRBase

Precursor miRNA Sequence(5'-3')

AGGAUGUGCCUGGCUCCCUGUAUGCCACUCAUCUAGAGCAACGACAGCUUGGUAGGGUUGCCUAUAAGAUGGAUGGCGUGCAUGGUGCCAAGCAUAUCUC

miRBase

Precursor miRNA Structure(5'-3') 

A        C    U  C         C      ---  A     GACAGC 
 GGAUGUGC UGGC CC UGUAUGCCA UCAUCU   AG GCAAC      U
 |||||||| |||| || ||||||||| ||||||   || |||||       
 UCUAUACG ACCG GG ACGUGCGGU GGUAGA   UC CGUUG      G
C        A    U  U         A      AUA  -     GGAUGG

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

osa-miR160c-3p      GCGUGCACGGAGCCAAGCAUA
bdi-miR160d-3p      GCGUGCACGGAGCCAAGCAUA
bdi-miR160b-3p      GCGUGCAAGGAGCCAAGCAUG
bdi-miR160c-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160g-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160b-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160c-3p      GCGUGCAUGGUGCCAAGCAUA
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