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-miR6224a-5p

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

CUCCGUCCUAAUAUAUAAGGC

miRBase

Precursor miRNA Sequence(5'-3')

ACUCCCUCCGUCCUAAUAUAUAAGGCGUAACCACUUUUUAAUCAUGUCCUAUAAUACAAAGCGUGCCCUCUCACAGACAUUAAUGCAGUAGUACUAGUGCUGAGAGAGAAAAUUAAAUGCGUUCUUGGUCUUUGAACCAGAGGUGGUUAUGCCUUAUAUACUAGGACGGAGGGAGU

miRBase

Precursor miRNA Structure(5'-3') 

               A                      UAA   -U U  UAU   A  AAGCGUGCC     A   A     A   A 
ACUCCCUCCGUCCUA UAUAUAAGGCGUAACCACUUUU   UCA  G CC   AAU CA         CUCUC CAG CAUUA UGC G
||||||||||||||| ||||||||||||||||||||||   |||  | ||   ||| ||         ||||| ||| ||||| |||  
UGAGGGAGGCAGGAU AUAUAUUCCGUAUUGGUGGAGA   AGU  C GG   UUG GU         GAGAG GUC GUGAU AUG G
               C                      CCA   UU U  UUC   C  AAAUUAAAA     A   -     C   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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