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

aly-miR319a-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

AGAGCUUCCUUGAGUCCAUUC

miRBase

Precursor miRNA Sequence(5'-3')

GGAUGUUGUAGGAAUAUAUAUGUAGAGAGAGCUUCCUUGAGUCCAUUCACAGGUCGUGAUAUGAUCCAAUUAGCUUCCGACUCAUUCAUCCAAAUACCGAGUCGCCAAAAUUCGAACUAGACUCGUUAAAUGAAUGAAUGAUGCGGUAGACAAAUUGGAUCAUUGAUUCUCUUUGAUUGGACUGAAGGGAGCUCCCUCUCUCUUCUGUAUUCCAAUUGUCU

miRBase

Precursor miRNA Structure(5'-3') 

    GUU  A        UAU U     --          G      U   C   UC  G U           A -  U   AC        C  AA  C      GCCAAAA 
GGAU   GU GGAAUAUA   G AGAGA  GAGCUUCCUU AGUCCA UCA AGG  GU A AUGAUCCAAUU G CU CCG  UCAUUCAU CA  UA CGAGUC       U
||||   || ||||||||   | |||||  |||||||||| |||||| ||| |||  || | ||||||||||| | || |||  |||||||| ||  || ||||||        
UCUG   UA CCUUAUGU   C UCUCU  CUCGAGGGAA UCAGGU AGU UCU  UA U UACUAGGUUAA C GA GGC  AGUAAGUA GU  AU GCUCAG       G
    --U  A        CUU -     CC          G      U   U   CU  G -           A A  U   GU        A  AA  U      AUCAAGC

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

zma-miR319b-5p      AGAGCGUCCUUCAGUCCACUC
zma-miR319d-5p      AGAGCGUCCUUCAGUCCACUC
sly-miR319c-5p      AGAGCUUCCUUCAGCCCACUC
aly-miR319a-5p      AGAGCUUCCUUGAGUCCAUUC
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