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-miR842-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UCAUGGUCAGAUCCGUCAUCC

miRBase

Precursor miRNA Sequence(5'-3')

AUAAACUAUUGCAAAAAGAGAGACCACAAGCGGGAUGAUGGAUCCGACCAUGAUGGUGUUGCAGAAACUUAUGUACGAGGUAGUUAUCCAGGGGUCGAAACACCAUCAUGGUCAGAUCCGUCAUCCCACUUAUGUUUUUUUAGGUCAACAAGGAUAU

miRBase

Precursor miRNA Structure(5'-3') 

AUAAACUAUUGCAAAA        CAC   C             C               GCA  AA   -AUGU  GA 
                AGAGAGAC   AAG GGGAUGAUGGAUC GACCAUGAUGGUGUU   GA  CUU     AC  G
                ||||||||   ||| ||||||||||||| |||||||||||||||   ||  |||     ||   
                UUUUUUUG   UUC CCCUACUGCCUAG CUGGUACUACCACAA   CU  GGA     UG  A
UAUAGGAACAACUGGA        -UA   A             A               -AG  GG   CCUAU  AU

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

ath-miR842         UCAUGGUCAGAUCCGUCAUCC
aly-miR842-3p      UCAUGGUCAGAUCCGUCAUCC
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