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-miR396f-3p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

AUAGUUCAAGAAAGUCCUUGGAAA

miRBase

Precursor miRNA Sequence(5'-3')

GCCAUGCUCUCCACAGGCUUUCUUGAACUGUGAACUCGUGUGUGCAUGCUCCUCAUAUAUUGUUCUAGAUCCCAUGCAUGAUGCAUAUCGAUCGAUCUGAUCUGAAUUAGGUCAUCGAUGCGCAUCUGGAUCCCCAUCUUGUUGAUAGUUCAAGAAAGUCCUUGGAAAACAUGGUG

miRBase

Precursor miRNA Structure(5'-3') 

-      CUC    CA                G   UCGUGUGUGCAUGCUCCUCAUAUAUUGUUCUAGAUCCCAUGCAUGAUGCAU 
 GCCAUG   UCCA  GGCUUUCUUGAACUGU AAC                                                   A
 ||||||   ||||  |||||||||||||||| |||                                                   U
 UGGUAC   AGGU  CUGAAAGAACUUGAUA UUG                                                   A
G      AAA    UC                G   UUCUACCCCUAGGUCUACGCGUAGCUACUGGAUUAAGUCUAGUCUAGCUAG

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

osa-miR396e-3p      AUGGUUCAAGAAAGCCCAUGGAAA
bdi-miR396b-3p      ---GUUCAAGAAAGCCCAUGGAAA
bdi-miR396a-3p      ---GUUCAAGAAAGUCCUUGGAAA
osa-miR396f-3p      AUAGUUCAAGAAAGUCCUUGGAAA
smo-miR396          ----UUCCACGGCUUUCUUGAACC
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