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

sbi-miR6224b-3p

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

CUUAUAUACUAGGACGGAGGG

miRBase

Precursor miRNA Sequence(5'-3')

CUCUCUCCGUCCUAAUAUAUAAGGCGCAAUCACUUUUUAUUUAUAUCCCAUAAUAUAAUAGCUCUCUCUCAUACAUCAAUACAGUAGUACUAGUAUUGAGAGAGAAUUAAAUAUGAUCUUGAUUUUUGAACCAAAGGUAGUUAAGCCUUAUAUACUAGGACGGAGGGAG

miRBase

Precursor miRNA Structure(5'-3') 

              A          GC   C      UA    --U   -CCAUA    AA   C         -   AUCAA   A 
CUCUCUCCGUCCUA UAUAUAAGGC  AAU ACUUUU  UUUA   AUC      AUAU  UAG UCUCUCUCA UAC     UAC G
|||||||||||||| ||||||||||  ||| ||||||  ||||   |||      ||||  ||| ||||||||| |||     |||  
GAGGGAGGCAGGAU AUAUAUUCCG  UUG UGGAAA  AAGU   UAG      UAUA  AUU AGAGAGAGU AUG     AUG G
              C          AA   A      CC    UUU   UUCUAG    -A   A         U   --AUC   A

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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