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-miR6224c-5p

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

CUCCGUCCUAAUAUAUAAGGC

miRBase

Precursor miRNA Sequence(5'-3')

UCAUUUUUGUCUUGUAGUAGACAUACUCCCUCCGUCCUAAUAUAUAAGGCGUAACCACUUUUUGUUCAUAUCUCAUAAUAUAAGGCGUGCUCUCUCACAAACAUUAAUGUAGCACUAUUAGUGCUGAGAGGGAGAGAAUUAAAUACGUUCUUGGUCUUUGAAUCAAAGGGUACGCCUUAUAUACUAGGACGGAGGGAGUAUAUGCUAAAGAUGAGCUAUGA

miRBase

Precursor miRNA Structure(5'-3') 

    -U        G     GAC                 A             A  A    UU     UAUCUCAUAAUAU     GUGCUCUCUCACAAACAUUAAUGUAGCACUAU 
UCAU  UUUGUCUU UAGUA   AUACUCCCUCCGUCCUA UAUAUAAGGCGUA CC CUUU  GUUCA             AAGGC                                U
||||  |||||||| |||||   ||||||||||||||||| ||||||||||||| || ||||  |||||             |||||                                A
AGUA  GAGUAGAA AUCGU   UAUGAGGGAGGCAGGAU AUAUAUUCCGCAU GG GAAA  UAAGU             UUCUG                                G
    UC        -     --A                 C             -  -    -C     -------------     GUUCUUGCAUAAAUUAAGAGAGGGAGAGUCGU

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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