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

ath-miR2111b-5p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UAAUCUGCAUCCUGAGGUUUA

miRBase

Precursor miRNA Sequence(5'-3')

CAACAACACGAAGAAGAAGAUGAAGGUACUUGAUGAUGAACGGGUAAUCUGCAUCCUGAGGUUUAAAACCAAUUAAGCAUAUACAUAUGCGAAUGUAUAGUUUUUAAUCCUCGGGAUACAGUUUACCUCUUCCUUACUCAAGAAAACACUUAGCUUUAACGGUUUUG

miRBase

Precursor miRNA Structure(5'-3') 

CAAC   A  AA    AAGAUG   -  --A     -   U   C      U   C         U      CCAAUUAA  A       AU 
    AAC CG  GAAG      AAG GU   CUUGA UGA GAA GGGUAA CUG AUCCUGAGG UUAAAA        GC UAUACAU  G
    ||| ||  ||||      ||| ||   ||||| ||| ||| |||||| ||| ||||||||| ||||||        || |||||||   
    UUG GC  UUUC      UUC CA   GAACU AUU CUU UCCAUU GAC UAGGGCUCC AAUUUU        UG AUAUGUA  A
-GUU   -  AA    ----GA   A  AAA     C   C   C      U   A         U      --------  -       AG

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

aly-miR2111a-5p      UAAUCUGCAUCCUGAGGUUUA-
aly-miR2111b-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111k         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111j         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111b         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111o         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111n         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111m-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111i         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111h         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111g-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111e-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111d-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111c         UAAUCUGCAUCCUGAGGUUUA-
ath-miR2111b-5p      UAAUCUGCAUCCUGAGGUUUA-
ath-miR2111a-5p      UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111e         UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111b         UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111a         UAAUCUGCAUCCUGAGGUUUA-
csi-miR2111-5p       UAAUCUGCAUCCUGAGGUUUG-
ptc-miR2111b         UAAUCUGCAUCCUGAGGUUUG-
ptc-miR2111a         UAAUCUGCAUCCUGAGGUUUG-
atr-miR2111          UAAUCUGUAUCUUGAGGUUUGG
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