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-miR164a-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

CACGUGUUCUCCUUCUCCAUC

miRBase

Precursor miRNA Sequence(5'-3')

CAGUGACAAGGACCACGCUGGAGAAGCAGGGCACGUGCAUGCGCAUACCAUAUAGCUAGACGAUGUUCUCUCUCGCUCCGCUCGACCAAGCUUCAUGUAUGGAUGGGUACGCACGCACGUGUUCUCCUUCUCCAUCGAGGUCUUUCUCACUU

miRBase

Precursor miRNA Structure(5'-3') 

C     C       A  C        C           A    ----   A      AGCUAGACGAUGUUCUCUCU 
 AGUGA AAGGACC CG UGGAGAAG AGGGCACGUGC UGCG    CAU CCAUAU                    C
 ||||| ||||||| || |||||||| ||||||||||| ||||    ||| ||||||                    G
 UCACU UUUCUGG GC ACCUCUUC UCUUGUGCACG ACGC    GUA GGUAUG                    C
U     C       A  U        C           C    AUGG   -      UACUUCGAACCAGCUCGCCU

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

sly-miR164b-3p      CACGUGUUCUCCUUCUCCAAC
zma-miR164a-3p      CACGUGUUCUCCUUCUCCAUC
ath-miR164c-3p      CACGUGUUCUACUACUCCAAC
aly-miR164c-3p      CACGUGUUCUACUCCUCCAAC
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