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

sbi-miR171f

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

AUGAGCCGAACCAAUAUCACU

miRBase

Precursor miRNA Sequence(5'-3')

UGAGAGAAUAAGACGACAUGGCGUGAUGUUGUUUCGGCUCAUGCAUAUCCUUCUUGAGUGUAUCAUCAGGAAAGAGGCGAUGAGCCGAACCAAUAUCACUCAUGUAUUCUUCAUUCAUA

miRBase

Precursor miRNA Structure(5'-3') 

UGAGA    -    CG      C         U          -  AUA  C       GUG 
     GAAU AAGA  ACAUGG GUGAUGUUG UUCGGCUCAU GC   UC UUCUUGA   U
     |||| ||||  |||||| ||||||||| |||||||||| ||   || |||||||    
     CUUA UUCU  UGUACU CACUAUAAC AAGCCGAGUA CG   AG AAGGACU   C
--AUA    C    UA      -         C          G  --G  A       ACU

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

zma-miR171k-5p      --UGGUAUUGUUUCGGCUCAUGU
zma-miR171h-5p      --UGGUAUUGUUUCGGCUCAUGU
vvi-miR479          UGUGGUAUUGGUUCGGCUCAUC-
csi-miR171b-5p      UGUGAUAUUGGUUCGGCUCAUC-
ppe-miR171d-5p      UGUGAUAUUGGUUCGGUUCAUA-
ptc-miR171l-5p      UGUGAUAUUGGUCCGGCUCAUC-
sbi-miR171f         -AUGAGCCGAACCAAUAUCACU-
lus-miR171h         -AUGAGCCGAACCAAUAUCACU-
vvi-miR171g         -UUGAGCCGAACCAAUAUCACC-
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