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

pha-miR159a

Organism

Panicum hallii

Species

Mature miRNA Sequence(5'-3')

AGCUGCUCGUUCAUGGUUCC

PmiREN

Precursor miRNA Sequence(5'-3')

GGTCGTTTGAAGGGTGGCACAGCTGCTCGTTCATGGTTCCCACTGTCCTATCTCATCGGCTTCCAGAGAGAGAGATATATATTAGATGATTGGTTTGAGATAGGCTTGTGGTTTGCATGACCGAGGAGCTGCATCGTCCCCTTGCTGACCGC

PmiREN

Precursor miRNA Structure(5'-3') 

--     UUUG     U   ---A     G    U     GUUC    UGU         UC    UCCAGAGAGAGAGA 
  GGUCG    AAGGG GGC    CAGCU CUCG UCAUG    CCAC   CCUAUCUCA  GGCU              U
  |||||    ||||| |||    ||||| |||| |||||    ||||   |||||||||  ||||               
  CCAGU    UUCCC CUG    GUCGA GAGC AGUAC    GGUG   GGAUAGAGU  UUGG              A
CG     --CG     -   CUAC     G    C     GUUU    UUC         --    UUAGUAGAUUAUAU

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

pha-miR159a           AGCUGCUCGUUCAUGGUUCC-
pha-miR159b           AGCUGCUCGUUCAUGGUUCC-
bdi-miR159b-5p.3      AGCUGCUUGUUCAUGGUUCCC
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