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-miR1515b-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

UCAUUUUUGCGUGCAAUGAUCC

miRBase

Precursor miRNA Sequence(5'-3')

UCGAUUUGCAUCAUUUUUGCGUGCAAUGAUCCCGAAUUUGCUCUCUUACUCAACUUUCUUUUUAAUUUACAAAUAUUCAUGUUUAUUGGUUUGAAAAAUAGAAAAAAAAAUUCUAAUUUUUGUUAACGGGGAUCUGGAUCAUUCACGCAAAAAUGAUUUGACUCGUGAGUUGGC

miRBase

Precursor miRNA Structure(5'-3') 

-U        -------              C        C  AUUUGC     -UACU   CUUUCUUUUUAAUUUACAAAUAUUCAUGUUUA 
  CGAUUUGC       AUCAUUUUUGCGUG AAUGAUCC GA      UCUCU     CAA                                U
  ||||||||       |||||||||||||| |||||||| ||      |||||     |||                                 
  GUUGAGUG       UAGUAAAAACGCAC UUACUAGG CU      AGGGG     GUU                                G
CG        CUCAGUU              -        U  ------     CAAUU   UUUAAUCUUAAAAAAAAAGAUAAAAAGUUUGG

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

gma-miR1515a         -UCAUUUU-GCGUGCAAUGAUCUG
gma-miR1515b         -UCAUUUU-GCGUGCAAUGAUCUG
csi-miR1515a         -UCAUUUUUGCGUGCAAUGAUCC-
csi-miR1515b-5p      -UCAUUUUUGCGUGCAAUGAUCC-
csi-miR1515b-3p      AUCAUUCACGCA-AAAAUGAUU--
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