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

bra-miR5718

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UCAGAACCAAACACAGAACAAG

miRBase

Precursor miRNA Sequence(5'-3')

UGAUUUAUGUUUUGUUGAUCUUGUUCUGGUUUGAUUUUGAACAGCUUAGUGUUGCUCUGUAAUGGAUGCAUAACCAGUAGAUAUGUCAGGAUAUUAAAAGGAACCGUUAUUUUGCCUCGUGAUAGCGAUGUUCCUUCGAAUCUUCUGACAUAUCUACUGCUUAUGCCACCAUUACAGAACAGCAACAAGCUGUUCAGAACCAAACACAGAACAAGAACAGCGGAACAUAAAAUC

miRBase

Precursor miRNA Structure(5'-3') 

UGA              A          -     A             AG     C          AU      C                 U   AA       --       UUG 
   UUUAUGUUUUGUUG UCUUGUUCUG GUUUG UUUUGAACAGCUU  UGUUG UCUGUAAUGG  GCAUAA CAGUAGAUAUGUCAGGA AUU  AAGGAAC  CGUUAUU   C
   |||||||||||||| |||||||||| ||||| |||||||||||||  ||||| ||||||||||  |||||| ||||||||||||||||| |||  |||||||  |||||||   C
   AAAUACAAGGCGAC AGAACAAGAC CAAAC AAGACUUGUCGAA  ACGAC AGACAUUACC  CGUAUU GUCAUCUAUACAGUCUU UAA  UUCCUUG  GCGAUAG   G
CUA              A          A     C             CA     A          AC      C                 C   GC       UA       UGC

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

bra-miR5718      UCAGAACCAAACACAGAACAAG
esa-miR5718      UCAGAACCAAACCCAGAACAAG
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