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

zma-miR164f-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

CACGUGCGCUCCUUCUCCAAC

miRBase

Precursor miRNA Sequence(5'-3')

CUGGAGAAGCAGGGCACGUGCUCGCCGACAAGUCGAAGCCUUAGGGCAGCUUGGCCUGUGGCUGCACGCGUACGUGGUCGUCGCAGCACGUGCGCUCCUUCUCCAACA

miRBase

Precursor miRNA Structure(5'-3') 

--C        C  G         -  C    AAGUCGAAGCCUUAGGGCAGCU 
   UGGAGAAG AG GCACGUGCU CG CGAC                      U
   |||||||| || ||||||||| || ||||                      G
   ACCUCUUC UC CGUGCACGA GC GCUG                      C
ACA        C  G         C  U    GUGCAUGCGCACGUCGGUGUCC

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-
                    ** *    * *********