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-miR823-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UAGGUUGGUGAUCAUAUAGGAU

miRBase

Precursor miRNA Sequence(5'-3')

GGAGAAAGCUUUUUUUAAGUGAAAAAUUUCAGGGAUGCUAAUCCAAUAGAUGGCGGAUACGUUUUCCAAUCACGAAUCUUGUAUGAUCACUAACCAUUGGAAGUAAAAGAGUAUAUAUGACUUCGAACGGUUUGCAAUACGGAGGCUCAUAGCAACCCUUUCUUCUUGCUAAUAUUGCAACUUGCAAGCCGUUCAAAUUAAAAUAGUCAUCAUUUAGUUCUAGGUUGGUGAUCAUAUAGGAUUGGUAACAGUGAAACAUAUCCCCCAUCUAUCGGGAUUAAUUAGUGUCCCUGAAUAGUCGUGAGAGAACCUUGUUUGUGUCUUU

miRBase

Precursor miRNA Structure(5'-3') 

-------GGAGA   C        AG   AAAAU             ----    -A        C     C     CCAAUC  G                     AU     G    A  GUAUAUA     --------UC             UACGGAGGCUCAUAGCAACCC 
            AAG UUUUUUUA  UGA     UUCAGGGAUGCUA    AUCC  AUAGAUGG GGAUA GUUUU      AC AAUCUUGUAUGAUCACUAACC  UGGAA UAAA GA       UGACU          GAACGGUUUGCAA                     U
            ||| ||||||||  |||     |||||||||||||    ||||  |||||||| ||||| |||||      || |||||||||||||||||||||  ||||| |||| ||       |||||          |||||||||||||                      
            UUC AAGAGAGU  GCU     AAGUCCCUGUGAU    UAGG  UAUCUACC CCUAU CAAAG      UG UUAGGAUAUACUAGUGGUUGG  AUCUU AUUU CU       ACUGA          CUUGCCGAACGUU                     C
UUUCUGUGUUUG   C        --   --GAU             UAAU    GC        C     A     UGACAA  G                     --     G    A  -------     UAAAAUUAAA             CAACGUUAUAAUCGUUCUUCU

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

aly-miR823-3p      UAGGUUGGUGAUCAUAUAGGAU
ath-miR823         -UGGGUGGUGAUCAUAUAAGAU
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