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-miR167d-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

GGUCAUGCUGCUGCAGCCUCACU

miRBase

Precursor miRNA Sequence(5'-3')

UGCCCAAGGGAACGAGUGAAGCUGCCAGCAUGAUCUAGCUCUGAGUGAUCACCCGAAAAAGAACAAUAGUUCUAGGUGGUCAUGCCUUGCUAGGUCAUGCUGCUGCAGCCUCACUUCUUCCCGUCGUUGGGCA

miRBase

Precursor miRNA Structure(5'-3') 

       ----     C      A     --              UCUGA         CGAAAA     A 
UGCCCAA    GGGAA GAGUGA GCUGC  CAGCAUGAUCUAGC     GUGAUCACC      AGAAC A
|||||||    ||||| |||||| |||||  ||||||||||||||     |||||||||      |||||  
ACGGGUU    CCCUU UUCACU CGACG  GUCGUACUGGAUCG     UACUGGUGG      UCUUG G
       GCUG     C      C     UC              UUCCG         -----A     A

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

aly-miR167b-3p      GGUCAUGCUCUGACAGCCUCACU
csi-miR167e-3p      GGUCAUGCUCUGACAGCCUCACU
stu-miR167c-3p      GGUCAUGCUCGGACAGCCUCACU
osa-miR167c-3p      GGUCAUGCUGCGGCAGCCUCACU
zma-miR167d-3p      GGUCAUGCUGCUGCAGCCUCACU
zma-miR167c-3p      GAUCAUGCUGUGGCAGCCUCACU
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