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

ath-miR845a

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

CGGCUCUGAUACCAAUUGAUG

miRBase

Precursor miRNA Sequence(5'-3')

AGAUAAGGGAUUGCACGAUUUCUCAAUAGUUCCGUCGCUGCGUUUCCAUCACGUCGAUUGCUGUCAGAGCCACGCCUAUGAAGAAUUUGUGCGGCUCUGAUACCAAUUGAUGCUAUGGAAACAUCGAUAUUGCCUGAUUCCGUGUUUCCUUUUACCUUGUUGU

miRBase

Precursor miRNA Structure(5'-3') 

-------AGAU      UU     AUUUC   AUA  UCC    CUGC        CA         C          A   CU  G 
           AAGGGA  GCACG     UCA   GU   GUCG    GUUUCCAU  CGUCGAUUG UGUCAGAGCC CGC  AU A
           ||||||  |||||     |||   ||   ||||    ||||||||  ||||||||| |||||||||| |||  || A
           UUUCCU  UGUGC     AGU   CG   UAGC    CAAAGGUA  GUAGUUAAC AUAGUCUCGG GUG  UA A
UGUUGUUCCAU      -U     --CUU   --C  UUA    --UA        UC         C          C   UU  A

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

vvi-miR845a          UAGCUCUGAUACCAAUU-GAUA----
vvi-miR845b          UAGCUCUGAUACCAAUU-GAUA----
bra-miR845           CGGCUCUGAUACCAAUU-GAUG----
esa-miR845           CGGCUCUGAUACCAAUU-GAUG----
ath-miR845a          CGGCUCUGAUACCAAUU-GAUG----
vvi-miR845c          AGGCUCUGAUACCAAUU-GAUG----
vvi-miR845d          UGGCUCUGAUACCAAUU-GAUG----
vvi-miR845e          UGGCUCUGAUACCAAUU-GAUG----
aly-miR845b-3p       UCGCUCUGAUACCAAAU-GAUG----
ath-miR845b          UCGCUCUGAUACCAAAUUGAUG----
ath-miR829-3p.1      -AGCUCUGAUACCAAAU-GAUGGAAU
bdi-miR845           -UGCUCUGAUACCAAUU-GUUGG---
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