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-miR156j

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UGACAGAAGAGAGAGAGCAC

miRBase

Precursor miRNA Sequence(5'-3')

GUGAUGACAGAAGAGAGAGAGCACAACCCAGCACCAGCGUGAAACACCGGCCGUCGGCCCGGUCGCUGAGGCAAGGGCCGUGUGCUCUCUGCUCUCUCUGUCAUGGCCA

miRBase

Precursor miRNA Structure(5'-3') 

--  G        -    -          --A   -A  AC     UGAAAC     -    
  GU AUGACAGA AGAG AGAGAGCACA   CCC  GC  CAGCG      ACCGG CCG 
  || |||||||| |||| ||||||||||   |||  ||  |||||      ||||| || U
  CG UACUGUCU UCUC UCUCUCGUGU   GGG  CG  GUCGC      UGGCC GGG 
AC  G        C    G          GCC   AA  GA     ------     C

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

rco-miR156e         ----UGACAGAAGAGAGAGAGCACA
tcc-miR156a         ----UGACAGAAGAGAGAGAGCACA
bdi-miR156a         ----UGACAGAAGAGAGAGAGCACA
zma-miR156j-5p      ----UGACAGAAGAGAGAGAGCACA
gma-miR156b         ----UGACAGAAGAGAGAGAGCACA
mtr-miR156a         ----UGACAGAAGAGAGAGAGCACA
sbi-miR156d         ----UGACAGAAGAGAGAGAGCACA
osa-miR156k         ----UGACAGAAGAGAGAGAGCACA
bdi-miR156j         ----UGACAGAAGAGAGAGAGCAC-
ath-miR156j         ----UGACAGAAGAGAGAGAGCAC-
sit-miR156e         ----UGACAGAAGAGAGAGAGCAC-
mdm-miR156t         ---UUGACAGAAGAGAGAGAGCAC-
mdm-miR156u         ---UUGACAGAAGAGAGAGAGCAC-
mdm-miR156v         ---UUGACAGAAGAGAGAGAGCAC-
mdm-miR156w         ---UUGACAGAAGAGAGAGAGCAC-
mes-miR156k         ---UUGACAGAAGAGAGAGAGCAC-
gma-miR156f         ---UUGACAGAAGAGAGAGAGCACA
esa-miR156b         ----UGACAGAAGAGAGAGAGCAC-
esa-miR156c         ----UGACAGAAGAGAGAGAGCAC-
pvi-miR156p         ---AUGACAGAAGAGAGAGAGCAC-
pvi-miR156r         ---AUGACAGAAGAGAGAGAGCAC-
bra-miR156n         ----UGACAGAAGAGAGAGAGCAC-
bra-miR156p         ----UGACAGAAGAGAGAGAGCAC-
csi-miR3946         UUGUAGAGAAAGAGAAGAGAGCAC-
                         ** * *    *********