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-miR821e

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

AAGUCAUCAAAAUAAAAGUUG

miRBase

Precursor miRNA Sequence(5'-3')

AAAAAGUCAUCAAAAUAAAAGUUGUAGAACUAGUCAAGAUCUCCCAUUUUUAUUUUAGUCAUUUUUUCAUAUGACAAAGUAAUAGUAACAUUGUUCAUAAAUUUUACAUAUCUCUGAUAUAGUUUAUGAAACUAUAUGAGAGAUAUGUAAAAUUUAUGAACAAUGUUACUAUUACUUUGUCAGAUGAAUAAAUGAUCAAAAUAAAAGUUGUAGAUCUUGAUGAGUUGUACAACUUGUAUAUUCAUGGCUUUAUCAACUAAAAUCAUUUA

miRBase

Precursor miRNA Structure(5'-3') 

----------------AA        C  A   A        G    A          C C           A       U     A                                            G           
                  AAAGUCAU AA AUA AAGUUGUA AACU GUCAAGAUCU C AUUUUUAUUUU GUCAUUU UUCAU UGACAAAGUAAUAGUAACAUUGUUCAUAAAUUUUACAUAUCUCU AUAUAGUUUA 
                  |||||||| || ||| |||||||| |||| |||||||||| | ||||||||||| ||||||| ||||| |||||||||||||||||||||||||||||||||||||||||||| ||||||||| U
                  UUUCGGUA UU UAU UUCAACAU UUGA UAGUUCUAGA G UGAAAAUAAAA UAGUAAA AAGUA ACUGUUUCAUUAUCAUUGUAACAAGUAUUUAAAAUGUAUAGAGA UAUAUCAAAA 
AUUUACUAAAAUCAACUA        C  A   G        G    G          U U           C       U     G                                            G

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

sbi-miR821a      AAGUCAUCAACAUAAAAGUUG---
sbi-miR821e      AAGUCAUCAAAAUAAAAGUUG---
sbi-miR821b      AAGUUAUGAACAUAAAAGUUG---
osa-miR821a      AAGUCAUCAACAAAAAAGUUGAAU
sbi-miR821d      AAGUCAUCAACAACAAAGUUG---
osa-miR821b      AAGUCAUCAACAAAAAAGUUGAAU
osa-miR821c      AAGUCAUCAACAAAAAAGUUGAAU
sbi-miR821c      AAGUCAUCAACAUAAAAGUUG---
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