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

bdi-miR164c-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

CAUGUGCGCUCCUUCUCCAGC

miRBase

Precursor miRNA Sequence(5'-3')

AUGAUUUGAGGAGAGGGGGCGAGCAAACCUUGCUGGAGAAGCAGGGCACGUGCUUGACCGGUCGGCCGGAGCCGGGUUGCAGCAUGUGCGCUCCUUCUCCAGCAUGGCUUCUCGCCCCGUCGACCGGCGUUCGGCAGG

miRBase

Precursor miRNA Structure(5'-3') 

----AUGAUUUGA  -A  G        C  A  U           C  G         -     GGU    C 
             GG  GA GGGGCGAG AA CC UGCUGGAGAAG AG GCACGUGCU UGACC   CGGC G
             ||  || |||||||| || || ||||||||||| || ||||||||| |||||   ||||  
             CC  CU CCCCGCUC UU GG ACGACCUCUUC UC CGUGUACGA GUUGG   GCCG G
GGACGGCUUGCGG  AG  G        -  C  U           C  G         C     ---    A

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-
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