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-miR7782-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

ACCUGCUCUGAUACCAUGUUGUGA

miRBase

Precursor miRNA Sequence(5'-3')

UCAUCAAGUAUAUUACGCGGCAUGGUAUUAGAGCAAGUUGCCAAAUCUGGCUGCCAUGACAAUUGGUGAUGGUGAUGGUAUUGUUUUGGUGACCUGCUCUGAUACCAUGUUGUGAAAUAUUUUUAAUGCA

miRBase

Precursor miRNA Structure(5'-3') 

-U   C   U     A                    A         -UCUG   ---     G  A 
  CAU AAG AUAUU CGCGGCAUGGUAUUAGAGCA GUUGCCAAA     GCU   GCCAU AC A
  ||| ||| ||||| |||||||||||||||||||| |||||||||     |||   ||||| || U
  GUA UUU UAUAA GUGUUGUACCAUAGUCUCGU CAGUGGUUU     UGG   UGGUA UG G
AC   A   U     A                    C         UGUUA   UAG     G  G

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

bra-miR1511         -AACCUGGCUCUGAUACCAUGAAGU--
gma-miR1511         -AACCAGGCUCUGAUACCAUG------
cpa-miR8155         UAACCUGGCUCUGAUACCA--------
ppe-miR1511-3p      --ACCUGGCUCUGAUACCAUAAC----
mdm-miR1511         --ACCUAGCUCUGAUACCAUGAA----
fve-miR1511         --ACCUAGCUCUGAUACCAUGUG----
bdi-miR7782-3p      --ACCU-GCUCUGAUACCAUGUUGUGA
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