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

mtr-miR5205a

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

CAUACAAUUUGGGACGGAGGGAG

miRBase

Precursor miRNA Sequence(5'-3')

UAUGAAAUACCCAAAACAUCAUACAAUUUGGGACGGAGGGAGGAAGGAACUUGAUUCUCUUAAGUAUGUGGAAUGAGUUGGAUUCCAAACUU

miRBase

Precursor miRNA Structure(5'-3') 

-UAUGAAAUAC    AA   CA    -        C   GG   GA 
           CCAA  CAU  UACA AUUUGGGA GGA  GAG  A
           ||||  |||  |||| |||||||| |||  |||  G
           GGUU  GUA  GUGU UGAAUUCU CUU  UUC  A
UUCAAACCUUA    GA   AG    A        -   AG   AA

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

sbi-miR6224a-3p      CUUAUAUACUAGGACGGAGGG---
sbi-miR6224b-3p      CUUAUAUACUAGGACGGAGGG---
sbi-miR6224c-3p      CUUAUAUACUAGGACGGAGGG---
mtr-miR5205c         CUUAUAAUUAGGGACGGAGGUAGU
mtr-miR5205d         CUUAUAAUUAGGGACGGAGGUAGU
mtr-miR5205b         CUUAUAAUUAGGGACGGAGGGAGU
mtr-miR5205a         CAUACAAUUUGGGACGGAGGGAG-
bdi-miR5181d         -ACUUAUUAUGGACCGGAGGGA--
sbi-miR6224a-5p      -CUCCGUCCUAAUAUAUAAGGC--
sbi-miR6224b-5p      -CUCCGUCCUAAUAUAUAAGGC--
sbi-miR6224c-5p      -CUCCGUCCUAAUAUAUAAGGC--
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