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

sit-miR171g

Organism

Setaria italica

Species

Mature miRNA Sequence(5'-3')

GAGCCGAACCAAUAUCACUCA

PmiREN

Precursor miRNA Sequence(5'-3')

GGAAGAAGAAGACGACATGGCGTGGTATTGTTCCGGCTCATGTCCTTCTTGAGTCTGTCGGCGGATGTGATGTGAGCCGAACCAATATCACTCATGTATTCTTCATTCAGAAAA

PmiREN

Precursor miRNA Structure(5'-3') 

--GGAA   -     CG      C         UUC           - U   UGA   U 
      GAA GAAGA  ACAUGG GUGGUAUUG   CGGCUCAUGUC C UCU   GUC G
      ||| |||||  |||||| |||||||||   ||||||||||| | |||   |||  
      CUU CUUCU  UGUACU CACUAUAAC   GCCGAGUGUAG G AGG   CGG G
AAAAGA   A     UA      -         CAA           U U   ---   C

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

dca-miR171-b2.0r1-12556      -UGAGCCGAACCAAUAUUACUC-
pha-miR171f                  -UGAGCCGAACCAAUAUCACUC-
sit-miR171f                  -UGAGCCGAACCAAUAUCACUC-
osa-miR171h                  GUGAGCCGAACCAAUAUCACU--
sbi-miR171e                  GUGAGCCGAACCAAUAUCACU--
zma-miR171k-3p               GUGAGCCGAACCAAUAUCACU--
zma-miR171h-3p               GUGAGCCGAACCAAUAUCACU--
pha-miR171g                  -UGAGCCGAACCAAUAUCACUC-
mdm-miR171i                  -UGAGCCGAACCAAUAUCACUC-
pvi-miR171k                  -UGAGCCGAACCAAUAUCACUC-
bdi-miR171f                  -UGAGCCGAACCAAUAUCACCC-
stu-miR479                   -UGAGCCGAACCAAUAUCACUC-
pvi-miR171m                  -UGAGCCGAACCAAUAUCACUC-
sit-miR171g                  --GAGCCGAACCAAUAUCACUCA
gma-miR171b-3p               -CGAGCCGAAUCAAUAUCACUC-
csi-miR171b-3p               -CGAGCCGAAUCAAUAUCACUC-
mtr-miR171h                  -CGAGCCGAAUCAAUAUCACUC-
mtr-miR171g                  -CGAGCCGAAUCAAUAUCACUC-
mac-miR171k                  -CGAGCCGAACCAAUAUCACUC-
mac-miR171l                  -CGAGCCGAACCAAUAUCACUC-
fve-miR171b                  -CGAGCCGAACCAAUAUCACUC-
mes-miR171l                  -CGAGCCGAACCAAUAUCACUC-
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