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

esa-miRN1020

Organism

Eutrema salsugineum

Species

Mature miRNA Sequence(5'-3')

UGUAAACGGACAAUCACGACU

PmiREN

Precursor miRNA Sequence(5'-3')

GACTCCGATTTCTATCTCTATGTAAACGGACAATCACGACTAGGTGTAAAGCCTTCAGAGCGTATTAGGTTGGTGACTCCGTTTTTCAAAGATGTGAATGTCTCTGATGG

PmiREN

Precursor miRNA Structure(5'-3') 

--GACUCC   -   -     CUA  -U       CAA    -    -------------    G 
        GAU UUC UAUCU   UG  AAACGGA   UCAC GACU             AGGU U
        ||| ||| |||||   ||  |||||||   |||| ||||             |||| A
        CUG AAG GUAGA   AC  UUUGCCU   AGUG UUGG             UCCG G
GGUAGUCU   U   U     --A  UU       --C    G    AUUAUGCGAGACU    A

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

gma-miR4357       --CAGUCGUGUGAUUGUACGGUUCAU
esa-miRN1020      UGUAAACGGACAAUC--ACGACU---
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