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

csi-miR171c-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

UGUUGGAACGGCUCAAUCAAA

miRBase

Precursor miRNA Sequence(5'-3')

AGCGGUAAGUGUUGAAAUUUAAAACGGAGAUGUUGGAACGGCUCAAUCAAAUCAAAUAUCCUAUGAAAUCAAUUGGGUCCUUUAAUUUGAUUGAGCCGUGCCAAUAUCUCCUCUCGUCUUCUUUCGCUUCAUCAACUU

miRBase

Precursor miRNA Structure(5'-3') 

--AGC   -     -UU   AUUUAAAAC           A               C   UAU    UGAA 
     GGU AAGUG   GAA         GGAGAUGUUGG ACGGCUCAAUCAAAU AAA   CCUA    A
     ||| |||||   |||         ||||||||||| ||||||||||||||| |||   ||||     
     CUA UUCGC   CUU         CCUCUAUAACC UGCCGAGUUAGUUUA UUU   GGGU    A
UUCAA   C     UUU   --CUGCUCU           G               A   CCU    UAAC

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

osa-miR171f-5p      UGUUGGCAUGGUUCAAUCAAA
zma-miR171i-5p      UGUUGGCACGGUUCAAUCAAA
csi-miR171c-5p      UGUUGGAACGGCUCAAUCAAA
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