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-miR444a-3p.1

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUGCUGCCUCAAGCUUGCUGC

miRBase

Precursor miRNA Sequence(5'-3')

AUGCAAUUGGGGGCAGCAAGCUAGAGGUGGCAACUGCAUAAUUUGCAAGAAAUUGUUGGCUGAAGAUCAUACCGAUGAUAUUCUUGCAAGUUAUGCAGUUGCUGCCUCAAGCUUGCUGCCUCCUGUUGCCA

miRBase

Precursor miRNA Structure(5'-3') 

AU     U              A                            -        -C     
  GCAAU GGGGGCAGCAAGCU GAGGUGGCAACUGCAUAAUUUGCAAGAA AUUGUUGG  UGAA 
  ||||| |||||||||||||| |||||||||||||||||||||||||||| ||||||||  ||| G
  CGUUG CCUCCGUCGUUCGA CUCCGUCGUUGACGUAUUGAACGUUCUU UAGUAGCC  ACUC 
AC     U              A                            A        AU

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

tae-miR444a           UUGCUGCCUCAAGCUUGCUGC-
tae-miR444b           UUGCUGCCUCAAGCUUGCUGC-
hvu-miR444a           UUGCUGCCUCAAGCUUGCUGC-
osa-miR444a-3p.1      UUGCUGCCUCAAGCUUGCUGC-
osa-miR444d.1         UUGCUGCCUCAAGCUUGCUGC-
bdi-miR444a           UUGCUGCCUCAAGCUUGCUGC-
osa-miR444b.1         -UGUUGUCUCAAGCUUGCUGCC
osa-miR444c.1         -UGUUGUCUCAAGCUUGCUGCC
                       ** ** **************