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

gra-miR1446

Organism

Gossypium raimondii

Species

Mature miRNA Sequence(5'-3')

AACUCUCUCCCUCAAAGGCUA

miRBase

Precursor miRNA Sequence(5'-3')

CAAGGGACCCAACAAUCACUAACUCUCUCCCUCAAAGGCUAUUCUGGUAUAUGGAUAUGCAAAUCCUUGUUAGUUGUUACUUGGAGUAGCCGUUGAGGUGAGAGCGUUAUAGAAUGUUGGCUCUCUGUCU

miRBase

Precursor miRNA Structure(5'-3') 

--CA     C      A  AC    U     -      A          -   UAUG   AU    A 
    AGGGA CCAACA UC  UAAC CUCUC CCUCAA GGCUAUUCUG GUA    GAU  GCAA U
    ||||| |||||| ||  |||| ||||| |||||| |||||||||| |||    |||  ||||  
    UCUCU GGUUGU AG  AUUG GAGAG GGAGUU CCGAUGAGGU CAU    UUG  UGUU U
UCUG     C      A  AU    C     U      G          U   --UG   AU    C

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

mes-miR1446b      UGAACUCUCCCCCUCAACGGCU-
gra-miR1446       --AACUCUCUCCCUCAAAGGCUA
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