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

bdi-miR2275b

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UUCAGUUUCUUCUAAUAUCUCA

miRBase

Precursor miRNA Sequence(5'-3')

UAUACAUGCGCUGUUCAAAGCGAGGAUUAGAAGGGACUGAAUCAUCUAUUAGAAAUGAUGGUUCAGUUUCUUCUAAUAUCUCACCUUGAAUGGUCCAUCUGUGAAGC

miRBase

Precursor miRNA Structure(5'-3') 

----    C   C         A C    -                     UAUU 
    UAUA AUG GCUGUUCAA G GAGG AUUAGAAGGGACUGAAUCAUC    A
    |||| ||| ||||||||| | |||| |||||||||||||||||||||     
    GUGU UAC UGGUAAGUU C CUCU UAAUCUUCUUUGACUUGGUAG    A
CGAA    C   C         C A    A                     UAAA

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

zma-miR2275b-3p      UUCAGUUUCCUCUAAUAUCUCA
zma-miR2275c-3p      UUCAGUUUCCUCUAAUAUCUCA
bdi-miR2275b         UUCAGUUUCUUCUAAUAUCUCA
                     ********* ************