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

ptc-miR6476c

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

UCAGUGGAGAUGAAACAUGA

miRBase

Precursor miRNA Sequence(5'-3')

UGGAGAUGCGGAUCAGUGGAGAUGAAACAUGAUUGCUACAGCAUUGCUAAGUGUUUAAAGAUGAACUGUGUGGUUAUUUCCUUGGUGAAUGUAUUUUUA

miRBase

Precursor miRNA Structure(5'-3') 

          --G     U        -A     ----   GC  C      G 
UGGAGAUGCG   AUCAG GGAGAUGA  ACAUG    AUU  UA AGCAUU C
||||||||||   ||||| ||||||||  |||||    |||  || ||||||  
AUUUUUAUGU   UGGUU CCUUUAUU  UGUGU    UAG  AU UUGUGA A
          AAG     -        GG     CAAG   AA  -      A

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

ptc-miR6476b      UCAGUGGAGAUGAA--ACAUGA--
ptc-miR6476c      UCAGUGGAGAUGAA--ACAUGA--
ptc-miR6476a      UCAGUGGAGAUGAA--ACAUGA--
gra-miR8748       UCGGUGGAGAUGGAUAAAAUGAAU
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