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-miR164a-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

CACGUACUCCCCUUCUCCAAC

miRBase

Precursor miRNA Sequence(5'-3')

GUUGGAGAAGCAGGGCACGUGCAAACCAACAAACACGAAAUCCGUCUCAUGUGUUUUGCACGUACUCCCCUUCUCCAAC

miRBase

Precursor miRNA Structure(5'-3') 

          CA   C         C  ACAAAC   A 
GUUGGAGAAG  GGG ACGUGCAAA CA      ACG A
||||||||||  ||| ||||||||| ||      ||| A
CAACCUCUUC  CUC UGCACGUUU GU      UGC C
          CC   A         U  GUACUC   C

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

csi-miR164c-3p      CACGCGCUCCCCUUCUCCAAC
csi-miR164d-3p      CACGCGCUCCCCUUCUCCAAC
csi-miR164b-3p      CACGCGCUCCCCUUCUCCAAC
aly-miR164a-3p      CACGUACUCCCCUUCUCCAAC
fve-miR164a-3p      CACGUGCUCCCCUUCUCCAAC
zma-miR164g-3p      CACGUGCUCCCCUUCUCCACC
zma-miR164f-3p      CACGUGCGCUCCUUCUCCAAC
bdi-miR164c-3p      CAUGUGCGCUCCUUCUCCAGC
zma-miR164d-3p      CACGUGGUCUCCUUCUCCAU-
                    ** *    * *********