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

esa-miR5718

Organism

Eutrema salsugineum

Species

Mature miRNA Sequence(5'-3')

UCAGAACCAAACCCAGAACAAG

PmiREN

Precursor miRNA Sequence(5'-3')

TACTGTTATTCTTGTTCTTGGTTGGTTCTGAACAACTTAGTGATGCTTTGTAATGGAGGCATAATGATATGTCAGCAGACTAGAACAAGCCGTTGATATGCCTCTTGATAGCCATGTTTTCTGTGTTACTCAACAGGCATATCAACGGTTCCTTCTAATCTCCTGAGATATCGTTGTGCCTCCATTACAGAGCAGCACTAAGCTGTTCAGAACCAAACCCAGAACAAGAGCAGTTGAACACAGATCTGAT

PmiREN

Precursor miRNA Structure(5'-3') 

---------------U     UAU         U    -           A       A                           G    C   C     CA                C    -    -  UG 
                ACUGU   UCUUGUUCU GGUU GGUUCUGAACA CUUAGUG UGCUUUGUAAUGGAGGCAUAAUGAUAU UCAG AGA UAGAA  AGCCGUUGAUAUGCCU UUGA UAGC CA  U
                |||||   ||||||||| |||| ||||||||||| ||||||| ||||||||||||||||||||||||||| |||| ||| |||||  |||||||||||||||| |||| |||| ||  U
                UGACG   AGAACAAGA CCAA CCAAGACUUGU GAAUCAC ACGAGACAUUACCUCCGUGUUGCUAUA AGUC UCU AUCUU  UUGGCAACUAUACGGA AACU AUUG GU  C
UAGUCUAGACACAAGU     ---         C    A           C       G                           G    C   A     CC                C    C    U  CU

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

bra-miR5718      UCAGAACCAAACACAGAACAAG
esa-miR5718      UCAGAACCAAACCCAGAACAAG
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