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

bdi-miR169k-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GGGCAAGUCAGCCUGGCUACC

miRBase

Precursor miRNA Sequence(5'-3')

UCUUUGCAUGGAAGUAGGAGGCCAUCUUUGAUAGCCAAGGAUGAUUUGCCUGUAAAACCGAUUGUCGUCGCCUCUCGGUGCCGUUCCAGGCACUCGAAGGGAGGGCGGCAGCAACAGGUUCUAUGGGCAAGUCAGCCUGGCUACCCGAGUACCUCUUACCCAUAUUCCAUGCCA

miRBase

Precursor miRNA Structure(5'-3') 

UCUUU        -----        CCAU   U A      A  A             A    GA    C      -    ----      GU 
     GCAUGGAA     GUAGGAGG    CUU G UAGCCA GG UGAUUUGCCUGUA AACC  UUGU GUCGCC UCUC    GGUGCC  U
     ||||||||     ||||||||    ||| | |||||| || ||||||||||||| ||||  |||| |||||| ||||    ||||||   
     CGUACCUU     CAUUCUCC    GAG C AUCGGU CC ACUGAACGGGUAU UUGG  AACG CGGCGG AGGG    UCACGG  A
---AC        AUACC        --AU   C C      -  G             C    AC    A      G    AAGC      AC

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

tae-miR169          GGGCAAGUCACCCUGGGCUACC
sit-miRN3032        GGGCAAAUCAUCC-GGGCUAAC
bdi-miR169k-3p      GGGCAAGUCAGCC-UGGCUACC
osa-miR169r-3p      UGGCAAGUC-UCCUCGGCUACC
bdi-miR169h-3p      --GGCAGUCACCU-UGGCUAGC
sbi-miR169d-3p      -GGGCGGUCACCU-UGGCUAGC
                      *    **  *   ***** *