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

gma-miR2118a-3p

Organism

Glycine max

Species

Mature miRNA Sequence(5'-3')

UUGCCGAUUCCACCCAUUCCU

miRBase

Precursor miRNA Sequence(5'-3')

AAGGGAAAGGGAGAAGAGCUUGAGGAAGUGAUGGGAGAUGGGAGGGUCGGUAAAGAAUAUAUCUGAGACUCGACUCAAUCUCGAUCUCUCUCAGUGUUGUGUUGUUUUGUUUAUCCUUUUGCCGAUUCCACCCAUUCCUAUGAUUUCCUUCGGUUCCUCUCUUUCCACUC

miRBase

Precursor miRNA Structure(5'-3') 

A  -          AA     U        G       A    A   -         -------------      --U      ---C    CU 
 AG GGAAAGGGAG  GAGCU GAGGAAGU AUGGGAG UGGG GGG UCGGUAAAG             AAUAUA   CUGAGA    UCGA  C
 || ||||||||||  ||||| |||||||| ||||||| |||| ||| |||||||||             ||||||   ||||||    ||||  A
 UC CCUUUCUCUC  CUUGG UUCCUUUA UAUCCUU ACCC CCU AGCCGUUUU             UUGUGU   GACUCU    AGCU  C
C  A          --     C        G       -    A   U         CCUAUUUGUUUUG      UGU      CUCU    CU

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

gma-miR2118a-3p      UUGCCGAUUCCACCCAUUCCU-
gma-miR2118b-3p      UUGCCGAUUCCACCCAUUCCU-
pvu-miR2118          UUGCCGAUUCCACCCAUUCCUA
mac-miR2118          UUGCCGAUUCCUCCCAUCCCUA
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