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

csi-miR171e-3p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

UUGAGCCGCGUCAAUAUCUCC

miRBase

Precursor miRNA Sequence(5'-3')

GAAGGGGAGAGUUGUAAAAUGAAAUCAUCAAGGUAUUGGCGCGCCUCAAUUUAAAGACGUGGUUAAGUGGGCAUGAUUAGCCAUGUAUUUUCAUUGAGCCGCGUCAAUAUCUCCUUAAUUAUUUUGUAACUCUCUCCUCUAUAU

miRBase

Precursor miRNA Structure(5'-3') 

----GA                    AAUCAUCA             C      UU   G          GUGG 
      AGGGGAGAGUUGUAAAAUGA        AGGUAUUGGCGCG CUCAAU  AAA ACGUGGUUAA    G
      ||||||||||||||||||||        ||||||||||||| ||||||  ||| ||||||||||     
      UCCUCUCUCAAUGUUUUAUU        UCUAUAACUGCGC GAGUUA  UUU UGUACCGAUU    U
UAUAUC                    --AAUUCC             C      CU   A          AGUA

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

csi-miR171e-3p      UUGAGCCGCGUCAAUAUCUCC
csi-miR171g-3p      UUGAGCCGCGUCAAUAUCUCC
fve-miR171h         UUGAGCCGCGUCAAUAUCUCC
mdm-miR171p         UUGAGCCGCGUCAAUAUCUCC
mdm-miR171b         UUGAGCCGCGUCAAUAUCUCC
mdm-miR171a         UUGAGCCGCGUCAAUAUCUCC
ppe-miR171h         UUGAGCCGCGUCAAUAUCUCC
mes-miR171a         UUGAGCCGCGUCAAUAUCUCC
gma-miR171t         UUGAGCCGCGUCAAUAUCUCA
gma-miR171n         UUGAGCCGCGUCAAUAUCUUA
gma-miR171p         UUGAGCCGCGUCAAUAUCUUA
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