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

gma-miR159e-5p

Organism

Glycine max

Species

Mature miRNA Sequence(5'-3')

GAGCUCCUUGAAGUCCAAUU

miRBase

Precursor miRNA Sequence(5'-3')

CAAAGGGGGUUAUGGAGUGGAGCUCCUUGAAGUCCAAUUGAGGAUCUUACUGGGUGGAUUGAGCUGCUUAGCUAUGGAUCCCACAGUUCUACCCAUCAUUAAGUGCUUUUGUGGUAGUCUUGUGGCUUCCAUAUCUGGGGAGCUUCAUUUGCCUUUAUAGUAUUAUCCUUCUUUGGAUUGAAGGGAGCUCUACACCCUUCUCCCCUUUUGU

miRBase

Precursor miRNA Structure(5'-3') 

-         -UUAU  A            GA       UU      CU    ----        U     G     C      UC      UU     -  UCAUUA 
 CAAAGGGGG     GG GUGGAGCUCCUU  AGUCCAA  GAGGAU  UACU    GGGUGGAU GAGCU CUUAG UAUGGA  CCACAG  CUACC CA      A
 |||||||||     || ||||||||||||  |||||||  ||||||  ||||    |||||||| ||||| ||||| ||||||  ||||||  ||||| ||       
 GUUUUCCCC     CC CAUCUCGAGGGA  UUAGGUU  UUCCUA  AUGA    UCCGUUUA UUCGA GGGUC AUACCU  GGUGUU  GAUGG GU      G
U         UCUUC  A            AG       UC      UU    UAUU        C     G     U      UC      CU     U  UUUCGU

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

ath-miR159b-5p      GAGCUCCUUGAAGUUCAAUGG
aly-miR159b-5p      GAGCUCCUUGAAGUUCAAUGG
gma-miR159a-5p      GAGCUCCUUGAAGUCCAAUUG
gma-miR159e-5p      GAGCUCCUUGAAGUCCAAUU-
fve-miR159a-5p      GAGCUCCUUGAAGUCCAAUAG
aly-miR159a-5p      GAGCUCCUUGAAGUUCAAACG
csi-miR159a-5p      GAGCUCCUUGAAGUCCAAAAG
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