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-miR167c-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GAUCAUGCUGUGCAGUUUCAUC

miRBase

Precursor miRNA Sequence(5'-3')

UUCACUUGCUGUGGUGCAUCUUCUAGGAGCUGAAGCUGCCAGCAUGAUCUGACGAGAGUUCCUCGUCUGAUAGCAAUGUUUAAUUCUCUUGUCAUGACUAAUGAUCAGAUCAUGCUGUGCAGUUUCAUCUGCUUGUGGAUGCACAAGAUACUGUUCAUA

miRBase

Precursor miRNA Structure(5'-3') 

------------------UUCACUUGCUGUGGUGCAUCUUCUAGGAGCUGAAGCUGCCAGCAUGAUCUGAC       CCU   C  A 
                                                                       GAGAGUU   CGU UG U
                                                                       |||||||   ||| ||  
                                                                       CUCUUAA   GUA AC C
AUACUUGUCAUAGAACACGUAGGUGUUCGUCUACUUUGACGUGUCGUACUAGACUAGUAAUCAGUACUGUU       UUU   -  G

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

zma-miR167f-3p      -GAUCGUGCUGCG-CAGUUUCACC--
csi-miR167b-3p      AGAUCAUGCGGC---AGUUUCACC--
zma-miR167b-3p      -GAUCAUGCUGUGACAGUUUCACU--
zma-miR167e-3p      -GAUCAUGCUGUG-CAGUUUCAUC--
bdi-miR167c-3p      -GAUCAUGCUGUG-CAGUUUCAUC--
osa-miR167d-3p      -GAUCAUGCUGUG-CAGUUUCAUC--
pvi-miR167b         AGAUCAUGUUGC---AGCUUCACU--
osa-miR167e-3p      AGAUCAUGUUGC---AGCUUCACU--
osa-miR167i-3p      AGAUCAUGUUGC---AGCUUCACU--
zma-miR167j-3p      -GAUCAUGUGGC---AGUUUCAUU--
tae-miR167b         ---UGAAGCUGAC--AGCAUGAUCUA
                       *   *  *    **  * *