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-miRN316

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UGAAUGUCUUUCUCUUCAUC

PmiREN

Precursor miRNA Sequence(5'-3')

GACAAGCACGGTTGGGATGATGGAGAGTAAAGGACATTCAGATCTGCAAAGCTTATGGTCCCGTAACTTTGAAAATGGATAGGGTGTTTGAGTTTGTTGTCCTGAATGTCTTTCTCTTCATCAAAACGGCCTCTAGTATATT

PmiREN

Precursor miRNA Structure(5'-3') 

--GACAAGCAC     GGA          UA            AU U     G    UGGU   G  A  UUG 
           GGUUG   UGAUGGAGAG  AAGGACAUUCAG  C GCAAA CUUA    CCC UA CU   A
           |||||   ||||||||||  ||||||||||||  | ||||| ||||    ||| || ||    
           CCGGC   ACUACUUCUC  UUUCUGUAAGUC  G UGUUU GAGU    GGG AU GG   A
UUAUAUGAUCU     AAA          --            CU U     -    UUGU   -  A  UAA

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

gra-miR8691      AGAUGAUGAGAAAGGAAAGUCAAG---------
bra-miRN316      -------------UGAAUGUCUUUCUCUUCAUC
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