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-miR821c

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

AAGUCAUCAACAAAAAAGUUGAAU

miRBase

Precursor miRNA Sequence(5'-3')

UCAACUGAAAAAGUCAUCAACAAAAAAGUUGAAUAACUCAUCAACAUCUAAAACUUUUAUUUUGGUUAUUUCUUCAUACGACAAAGUGAUAGUAACAUUAUUCACAAAAUUGACAUAACUCUUAUCUGGUUUUAUAAACUAUAACACAUAUAUGUAAAAUUUGUGAAUAAUUUUCUAACAUUUUGUCAGAUGAAGAAACAACAAAAAUAAAAGUUUUAGAUCUUGAUGAGUUAUUCAACUUUGUUGUUGAUGACUUUUUCAAUUGA

miRBase

Precursor miRNA Structure(5'-3') 

    C                  A                    C                  G   A         AC         A   U  C            A  G     ACUCUUAUC        
UCAA UGAAAAAGUCAUCAACAA AAAGUUGAAUAACUCAUCAA AUCUAAAACUUUUAUUUU GUU UUUCUUCAU  GACAAAGUG UAG AA AUUAUUCACAAA UU ACAUA         UGGUUUU 
|||| |||||||||||||||||| |||||||||||||||||||| |||||||||||||||||| ||| |||||||||  ||||||||| ||| || |||||||||||| || |||||         |||||| A
AGUU ACUUUUUCAGUAGUUGUU UUUCAACUUAUUGAGUAGUU UAGAUUUUGAAAAUAAAA CAA AAAGAAGUA  CUGUUUUAC AUC UU UAAUAAGUGUUU AA UGUAU         AUCAAAA 
    A                  G                    C                  A   C         GA         A   -  U            A  A     AUACACAAU

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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