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

osa-miR5075

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUCUCCGUCGCCGCCGUCCGC

miRBase

Precursor miRNA Sequence(5'-3')

GUCGGAGGAGCGGGACGAGUGCGACGGGAUGGCGACCGUCGCCGGCGACAGGUUCCUCGCCGUGAGCGGGUACCGCACGGCGAGGCAGGGCGGGUUCGAGCGCGACGCCGAGUGGUUCGACCCGGCGGCGCGCGCGUGGCGCCGCCUCGACCGCGUCCGCGCCCCUCCCUCCGCCGCCCACGUCGUGGUCCGCGGCCGCGUCUGGUGCAUCGAGGGCGCCGCCGUGAUGGAGUGGCUCGGCUCGCGCGGCGGGUGGCGCGAGGUCGGCCCCUCCCCCCCGGGCCUCAAGGCCGGCACCGCCCGCGCCGUCUGCGUCGGCGGCGGCGAGCGCGUCGUCGUCACCGGCGCCAUCGAGGACUCCGACGGCGGGUCCGGCCGCCACGCCCUCUGGGUGUUCGACGUAAAGACCAAGAACUGGACCGUGGUUCGCCCACCUCCAGAGUUCGCCGGAUUCGCCUUCUCCGUCGCCGCCGUCCGCAUCUGAUCCG

miRBase

Precursor miRNA Structure(5'-3') 

GU    --   -    G   A   -      -  U     CCGUCG       CAGGUUCCUCGCCGUGAGCGGGUACCGCACGGCGAGGCAGGGCGGGUUCGAGCGCGACGCCGAGUGGUUCGACCCGGCGGCGCGCGCGUGGCGCCGCCUCGACCGCGUCCGCGCCCCUCCCUCCGCCGCCCACGUCGUGGUCCGCGGCCGCGUCUGGUGCAUCGAGGGCGCCGCCGUGAUGGAGUGGCUCGGCUCG 
  CGGA  GGA GCGG ACG GUG CGACGG GA GGCGA      CCGGCGA                                                                                                                                                                                                    C
  ||||  ||| |||| ||| ||| |||||| || |||||      |||||||                                                                                                                                                                                                    G
  GCCU  UCU CGCC UGC CGC GCUGCC CU CCGCU      GGCCGCU                                                                                                                                                                                                    G
--    AG   A    -   -   C      U  U     ----UA       UGAGACCUCCACCCGCUUGGUGCCAGGUCAAGAACCAGAAAUGCAGCUUGUGGGUCUCCCGCACCGCCGGCCUGGGCGGCAGCCUCAGGAGCUACCGCGGCCACUGCUGCUGCGCGAGCGGCGGCGGCUGCGUCUGCCGCGCCCGCCACGGCCGGAACUCCGGGCCCCCCCUCCCCGGCUGGAGCGCGGUGGGCGG

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

osa-miR5075      UUCUCCGUCGCCGCCGUCCGC---
sbi-miR5384      -----CG-CGCCGCCGUCCAGCGG
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