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

ath-miR842

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UCAUGGUCAGAUCCGUCAUCC

miRBase

Precursor miRNA Sequence(5'-3')

CAGUACCGUUCAGGGUGACAGAAACAUUUUCGAAAAGAGAGGCUAUAAGCGGGAUGAUGAAUCCGACCAUGAUGGUGUUGCAGAAAUUUAUGUAUGAUGUAGUUAUUGUCCAGGGAUCGAAACACCAUCAUGGUCAGAUCCGUCAUCCCACUUAUGUUUUCUUAGGUCAACAAAUAUGGACAAUUGAAAAGUGAAGCUC

miRBase

Precursor miRNA Structure(5'-3') 

CAGUACCGUUCAGGGUGACAGAAACAUUUUCGAAAA      C      C         A   C               GCA  AA   A  U      U 
                                    GAGAGG UAUAAG GGGAUGAUG AUC GACCAUGAUGGUGUU   GA  UUU UG AUGAUG A
                                    |||||| |||||| ||||||||| ||| |||||||||||||||   ||  ||| || ||||||  
                                    UUCUUU GUAUUC CCCUACUGC UAG CUGGUACUACCACAA   CU  AGG AC UGUUAU U
CUCGAAGUGAAAAGUUAACAGGUAUAAACAACUGGA      U      A         C   A               -AG  --   G  C      U

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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