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

osa-miR2275c

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

AGAAUUGGAGGAAAACAAACUGA

miRBase

Precursor miRNA Sequence(5'-3')

ACUGGAAGUGAGAAUUGGAGGAAAACAAACUGAUUGCUGGUUGAUGCUUGCAACAGUGUGGCAAACAAUUAAUAUUCAGAUUGUUUUUCUCCAAUAUCUCACCUUCAGG

miRBase

Precursor miRNA Structure(5'-3') 

A     A      -               A    U  C      -A    -U  A 
 CUGGA GUGAGA AUUGGAGGAAAACAA CUGA UG UGGUUG  UGCU  GC A
 ||||| |||||| ||||||||||||||| |||| || ||||||  ||||  ||  
 GACUU CACUCU UAACCUCUUUUUGUU GACU AU AUUAAC  ACGG  UG G
G     C      A               A    U  A      AA    UG  A

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

zma-miR2275a-5p      AGAGUUGGAGGAAAGCAAACC--
zma-miR2275d-5p      AGAGUUGGAGGAAAGAAAACU--
osa-miR2275c         AGAAUUGGAGGAAAACAAACUGA
                     *** **********  ****