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-miR156f-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GCUCACUGCUCUAUCUGUCAGC

miRBase

Precursor miRNA Sequence(5'-3')

UGAGUGGAAGCUGACAGAAGAGAGUGAGCACCCAUGGUGUUUCGUUUGCAUCAAGGACAUGCCAGGGAGCUAUGCGUGCUCACUGCUCUAUCUGUCAGCCAGCCACUGAU

miRBase

Precursor miRNA Structure(5'-3') 

- G     -AA         -    -         C      GUU  G  U    CA 
 U AGUGG   GCUGACAGA AGAG AGUGAGCAC CAUGGU   UC UU GCAU  A
 | |||||   ||||||||| |||| ||||||||| ||||||   || || ||||  G
 A UCACC   CGACUGUCU UCUC UCACUCGUG GUAUCG   AG GA CGUA  C
U G     GAC         A    G         C      ---  G  C    CA

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

stu-miR156k-3p      GCUCACUGCUCUAUCUGUCACC
sly-miR156d-3p      GCUCACUGCUCUAUCUGUCACC
stu-miR156j-3p      GCUCACUGCUCUAUCUGUCACC
stu-miR156i-3p      GCUCACUGCUCUAUCUGUCACC
stu-miR156h-3p      GCUCACUGCUCUAUCUGUCACC
zma-miR156l-3p      GCUCACUGCUCUAUCUGUCACC
zma-miR156i-3p      GCUCACUGCUCUAUCUGUCAUC
bdi-miR156f-3p      GCUCACUGCUCUAUCUGUCAGC
osa-miR156b-3p      GCUCACU-CUCUAUCUGUCAGC
ath-miR156c-3p      GCUCACUGCUCUAUCUGUCAGA
aly-miR156a-3p      GCUCACUGCUCUUUCUGUCAGA
aly-miR156c-3p      GCUCACUGCUCUAUCUGUCAGA
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