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

ath-miR838

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UUUUCUUCUACUUCUUGCACA

miRBase

Precursor miRNA Sequence(5'-3')

UACUUUUCUAAUAUCACGAGGACUUACAUGGCCUCAAGUCACCUGUGGUGUUGUGCAAGAAGGAGAAGCAAAGUCUGUCUAUGUAUUAUGAGAUAGCUACUUCUAUGGCUAGGAUAUAUGUUGUACAAGACCGGCUUUUCUUCUACUUCUUGCACAACCUGAGGUUAUUGAGGCUAUACAAGUCUUCUUCUAUAAUGUUAUUUAUUA

miRBase

Precursor miRNA Structure(5'-3') 

---UACUUUUCUAAUAUCAC        AC          GUC    GU  U             G     C      U    A     ----    AGA      CU 
                    GAGGACUU  AUGGCCUCAA   ACCU  GG GUUGUGCAAGAAG AGAAG AAAGUC GUCU UGUAU    UAUG   UAGCUA  U
                    ||||||||  ||||||||||   ||||  || ||||||||||||| ||||| |||||| |||| |||||    ||||   ||||||   
                    CUUCUGAA  UAUCGGAGUU   UGGA  UC CAACACGUUCUUC UCUUC UUUCGG CAGA ACAUG    AUAU   AUCGGU  A
AUUAUUUAUUGUAAUAUCUU        CA          -AU    -G  -             A     U      C    -     UUGU    AGG      AU

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

ath-miR838         UUUUCUUCUACUUCUUGCACA
aly-miR838-3p      UUUUCUUCUUCUUCUUGCACA
ath-miR5021        -UGAGAAGAAGAAGAAGAAAA
                    *              * * *