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-miR5205c

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

CUUAUAAUUAGGGACGGAGGUAGU

miRBase

Precursor miRNA Sequence(5'-3')

AAAAGGGUCUUAUAAUUAGGGACGGAGGUAGUAUUGAUUGGACGGCUACUGAUGAUCUGAAUGCAUGACAUGAAUACAUUUUUUUCUUUGACAUUAACAAAUCCUGUGGCCGUUUCUCUUUGUCUUUUAUUAUGUUAGCCCGUUUCCCUC

miRBase

Precursor miRNA Structure(5'-3') 

-----AAAA    -CU      U           UAGUAUUGAUU          -U   GAUCUG    -  UGACAU   U 
         GGGU   UAUAAU AGGGACGGAGG           GGACGGCUAC  GAU      AAUG CA      GAA A
         ||||   |||||| |||||||||||           ||||||||||  |||      |||| ||      ||| C
         CCCG   GUAUUA UUUCUGUUUCU           UUUGCCGGUG  CUA      UUAC GU      UUU U
CUCCCUUUG    AUU      U           ----------C          UC   -AACAA    A  UUCUUU   U

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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