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-miR7122-5p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

UUAUACAGAGAAACCGCUGUCG

miRBase

Precursor miRNA Sequence(5'-3')

UUAUACAGAGAAACCGCUGUCGAGUCUGAUAAAAAAAUUUGGUCUUCUCAUGCUCCACAGCGUUUCUCUGUAUAACC

miRBase

Precursor miRNA Structure(5'-3') 

--              C     C    C   UAAAAAAA 
  UUAUACAGAGAAAC GCUGU GAGU UGA        U
  |||||||||||||| ||||| |||| |||         
  AAUAUGUCUCUUUG CGACA CUCG ACU        G
CC              -     C    U   CUUCUGGU

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

ppe-miR7122b-5p      UUAUACAAUGAAAUCACGGUCG
ppe-miR7122a-5p      UUAUACAAUGAAAUCACGGCCG
stu-miR7122-5p       UUAUACAGAGAAACCGCUGUCG
mdm-miR7122b         UUAUACAGAGAAAUCACGGUCG
mdm-miR7122a         UUAUACAGAGAAAUCACGGUCG
csi-miR3954b-5p      UUGGACAGAGAAAUCACGGUCA
csi-miR3954          -UGGACAGAGAAAUCACGGUCA
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