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

aly-miR838-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UUUUCUUCUUCUUCUUGCACA

miRBase

Precursor miRNA Sequence(5'-3')

GAGGACUUCCAUGGCCUCAAUCCACCUCCGGUGUUGUGCAAGAAUGAGAAGCAAAGCCUGUCUAUGUAUUGUGAGAUAUCUACUUCUAUGACUAGGAUAUAUGUACAAGACCGGCUUUUCUUCUUCUUCUUGCACAACCUGAGGUAAUUGGGGCUAUACAAGUCUUC

miRBase

Precursor miRNA Structure(5'-3') 

        CC           CC     C  U            U      C      U    A     UGUGAG      ACUUC 
GAGGACUU  AUGGCCUCAAU  ACCUC GG GUUGUGCAAGAA GAGAAG AAAGCC GUCU UGUAU      AUAUCU     U
||||||||  |||||||||||  ||||| || |||||||||||| |||||| |||||| |||| |||||      ||||||     A
CUUCUGAA  UAUCGGGGUUA  UGGAG UC CAACACGUUCUU UUCUUC UUUCGG CAGA ACAUG      UAUAGG     A
        CA           -A     -  -            C      U      C    -     ----UA      AUCAG

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
                    *              * * *