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

osa-miR821a

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

AAGUCAUCAACAAAAAAGUUGAAU

miRBase

Precursor miRNA Sequence(5'-3')

GAUAUCAGCUGAAAAAGUCAUCAACAAAAAAGUUGAAUAACUCAUCAAGAUCUAAAACUUUUAUUUUGGUCAUUUCUUCAUACGACAAAGUGAUAGUAACAUUGUUCACAGAAUUGACAUAUCUCUUAUCUGGUUUUAUAAACUAUAACACAUAUAUGUAAAAUUUGUGAAUAAUAUUACUAACAUUUCGUCAGAUGAAGAAAUAAAAAAAUAAAAGUUAUAGAUCUUGAUGAGUUAUUCAACUUUGUUGUUGAUGACUUUUUCAAUUGAAAUC

miRBase

Precursor miRNA Structure(5'-3') 

   A    C                  A                          A            GGUC          AC   A     A      C            A  G      CUCUUAUC        
GAU UCAG UGAAAAAGUCAUCAACAA AAAGUUGAAUAACUCAUCAAGAUCUA AACUUUUAUUUU    AUUUCUUCAU  GAC AAGUG UAGUAA AUUGUUCACAGA UU ACAUAU        UGGUUUU 
||| |||| |||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||    ||||||||||  ||| ||||| |||||| |||||||||||| || ||||||        |||||| A
CUA AGUU ACUUUUUCAGUAGUUGUU UUUCAACUUAUUGAGUAGUUCUAGAU UUGAAAAUAAAA    UAAAGAAGUA  CUG UUUAC AUCAUU UAAUAAGUGUUU AA UGUAUA        AUCAAAA 
   A    A                  G                          A            -AAA          GA   C     A      A            A  A      UACACAAU

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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