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

csi-miR159a-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

GAGCUCCUUGAAGUCCAAAAG

miRBase

Precursor miRNA Sequence(5'-3')

GGGUUAAGGAGUGGAGCUCCUUGAAGUCCAAAAGAGGUUCUAGCAAGGGUAAAUUGAGCUGCUGAGCUAUGGAUCCCACAGUCCUAUGUAUCAGAUUUUAGGGUUUGUUUCUGAUGAUGGUGAUGAUAGGUUUGUGGCUUGCAUAUUUCUGGAGCUUCAUUACCCCUUAAGUUUUACCCUUUUUUGGAUUGAAGGGAGCUCUACCUCUCUAC

miRBase

Precursor miRNA Structure(5'-3') 

GG  UA   A            GA             UUCU   --     UA   U     G U   C    G UC      U     G     -G   -      U 
  GU  AGG GUGGAGCUCCUU  AGUCCAAAAGAGG    AGC  AAGGG  AAU GAGCU C GAG UAUG A  CCACAG CCUAU UAUCA  AUU UUAGGG U
  ||  ||| ||||||||||||  |||||||||||||    |||  |||||  ||| ||||| | ||| |||| |  |||||| ||||| |||||  ||| |||||| U
  CA  UCU CAUCUCGAGGGA  UUAGGUUUUUUCC    UUG  UUCCC  UUA UUCGA G CUU AUAC U  GGUGUU GGAUA GUAGU  UAG AGUCUU U
--  UC   C            AG             CAUU   AA     CA   C     G U   U    G UC      U     -     GG   U      U

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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