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-miR2275a-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UUUGUUUUCCUCCAAUAUCUCA

miRBase

Precursor miRNA Sequence(5'-3')

GUCAGGCACUGAAAGUGAGAGUUGGAGGAAAGCAAACCGGCUGGGUAUCGGAUUCAGCAACGGAGGGUGCUGCCGGUCGGUUUGUUUUCCUCCAAUAUCUCACCUUCAGUCGAUAGUCUGAU

miRBase

Precursor miRNA Structure(5'-3') 

       -----      A      -                        GUAUCGGAUU     A G 
GUCAGGC     ACUGAA GUGAGA GUUGGAGGAAAGCAAACCGGCUGG          CAGCA C G
|||||||     |||||| |||||| ||||||||||||||||||||||||          ||||| |  
UAGUCUG     UGACUU CACUCU UAACCUCCUUUUGUUUGGCUGGCC          GUCGU G G
       AUAGC      C      A                        ----------     G G

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

osa-miR2275b         UUUGGUUUCCUCCAAUAUCUCA
bdi-miR2275c         UUUGGUUUCCUCCAAUAUCUCA
osa-miR2275a         UUUGGUUUCCUCCAAUAUCUCA
bdi-miR2275a         UUUGGUUUCCUCCAAUGUCUCA
zma-miR2275a-3p      UUUGUUUUCCUCCAAUAUCUCA
zma-miR2275d-3p      UUUGUUUUCCUCUAAUAUCUCA
csi-miR2275a-3p      UUUAGUUUCCUCCAAUAUCUUA
csi-miR2275b-3p      UUUAGUUUCCUCCAAUAUCUUA
mes-miR2275          UUUGGUUUCCUCCAAUAUCUUA
tae-miR2275-3p       UUUGGUUUCCUCCAAUAUCUCG
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