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

bra-miR391a

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UUCGCAGGAGAGAUAGCGCCA

PmiREN

Precursor miRNA Sequence(5'-3')

AACTGCAAATAAAGGTTCGCTTCGCAGGAGAGATAGCGCCATCACTTCTTCTTAAGAGTTTAGAAGATGGTGACGGTATCTCTCCTACGTAGCAATCCTTATATATGCATCTA

PmiREN

Precursor miRNA Structure(5'-3') 

-AAC    A   -    UUC   U  C          G  C     CU      UAA 
    UGCA AUA AAGG   GCU CG AGGAGAGAUA CG CAUCA  UCUUCU   G
    |||| ||| ||||   ||| || |||||||||| || |||||  ||||||   A
    ACGU UAU UUCC   CGA GC UCCUCUCUAU GC GUGGU  AGAAGA   U
AUCU    A   A    UAA   U  A          G  A     --      UUU

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

bra-miR391a        UUCGCAGGAGAGAUAGCGCCA
bra-miR391b        UUCGCAGGAGAGAUAGCGCCA
cru-miR391         UUCGCAGGAGAGAUAGCGCCA
aly-miR391-5p      UUCGCAGGAGAGAUAGCGCCA
ath-miR391-5p      UUCGCAGGAGAGAUAGCGCCA
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