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

stu-miR399h

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GGGCUACUCUCUAUUGGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

GGGCUACUCUCUAUUGGCAUGCAGUUAUCACAUAUUUCUGCUAACAAACCAAGGGAGAGUUGUCCUA

miRBase

Precursor miRNA Structure(5'-3') 

--    U       A    ----CAU    UU  C 
  GGGC ACUCUCU UUGG       GCAG  AU A
  |||| ||||||| ||||       ||||  || C
  CCUG UGAGAGG AACC       CGUC  UA A
AU    U       G    AAACAAU    UU  U

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

aly-miR399e-5p      GGGCGAAUCCUCUAUUGGCAGG
csi-miR399e-5p      GGGC-AAUUCUCUAUUGGCAGU
stu-miR399g-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399h         GGGC-UACUCUCUAUUGGCAUG
stu-miR399f-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399e-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399d-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399c-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399b-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399a-5p      GGGC-UACUCUCUAUUGGCAUG
aly-miR399b-5p      GGGC-GCCUCUCCAUUGGCAGG
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