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-miR393b-3p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UCAGUGCAAUCCCUUUGGAAU

miRBase

Precursor miRNA Sequence(5'-3')

UCGGCCUGAGGAAACUAGUGGAGGACUCCAAAGGGAUCGCAUUGAUCUGGCUAGCUAUCUCGAUCGAUCGCCUCAUCGAUCGACGACGACGUGCGUGAUCGAUCAGUGCAAUCCCUUUGGAAUUUUCCUCUU

miRBase

Precursor miRNA Structure(5'-3') 

UCGGCCUGAGGAAACU  U      C           C         U  - UA  -UA  -   A       CC 
                AG GGAGGA UCCAAAGGGAU GCAUUGAUC GG C  GC   UC UCG UCGAUCG  U
                || |||||| ||||||||||| ||||||||| || |  ||   || ||| |||||||   
                UC CCUUUU AGGUUUCCCUA CGUGACUAG CU G  CG   AG AGC AGCUAGC  U
---------------U  U      A           A         -  A UG  UGC  C   -       UA

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

ath-miR393a-3p      AUCA-UGCUAUCUCUUUGGAUU
aly-miR393a-3p      AUCA-UGCUAUCUCUUUGGAUU
csi-miR393c-3p      AUCA-UGCUAUCCCUUUGGAUU
mdm-miR393h         AUCA-UGCUAUCCCUUUGGAUU
mdm-miR393g         AUCA-UGCUAUCCCUUUGGAUU
gma-miR393c-3p      AUCA-UGCUAUCCCUUUGGAUU
ptc-miR393b-3p      AUCA-UGCUAUCCCUUUGGAUU
ptc-miR393a-3p      AUCA-UGCUAUCCCUUUGGAUU
osa-miR393b-3p      -UCAGUGCAAUCCCUUUGGAAU
zma-miR393c-3p      GUCAGUGCAAUCCCUUUGGAAU
bdi-miR393b-3p      -UCAGUGCAAUCCCUUUGGAAU
zma-miR393a-3p      AUCAGUGCAAUCCCUUUGGAAU
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