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

osa-miR390-5p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

AAGCUCAGGAGGGAUAGCGCC

miRBase

Precursor miRNA Sequence(5'-3')

GGUAUGGAACAAUCCUUGAAGCUCAGGAGGGAUAGCGCCUCGAAAUCAAACUAGGCGCUAUCUAUCCUGAGCUCCAUGGUUUGUUCUUACC

miRBase

Precursor miRNA Structure(5'-3') 

    U       U  U  A         G           C AAA 
GGUA GGAACAA CC UG AGCUCAGGA GGAUAGCGCCU G   U
|||| ||||||| || || ||||||||| ||||||||||| |    
CCAU UCUUGUU GG AC UCGAGUCCU UCUAUCGCGGA C   A
    -       U  U  C         A           U AAA

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

gma-miR390e                  ---AGCUCAGGAGGGAUAGCGCC
ppt-miR390c-5p               --GAGCUCAGGAGGGAUAGCGCC
csi-miR390b-5p               ---AGCUCAGGAGGGAUAGCGCC
cru-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
esa-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
mac-miR390c                  --AAGCUCAGGAGGGAUAGCGCC
mac-miR390f                  --AAGCUCAGGAGGGAUAGCGCC
pvi-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
pvi-miR390e                  --AAGCUCAGGAGGGAUAGCGCC
zos-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
ath-miR390b-5p               --AAGCUCAGGAGGGAUAGCGCC
ptc-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
ppt-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
vvi-miR390                   --AAGCUCAGGAGGGAUAGCGCC
zma-miR390a-5p               --AAGCUCAGGAGGGAUAGCGCC
rco-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
aly-miR390b-5p               --AAGCUCAGGAGGGAUAGCGCC
bdi-miR390a-5p               --AAGCUCAGGAGGGAUAGCGCC
lus-miR390c                  --AAGCUCAGGAGGGAUAGCGCC
gma-miR390g                  --AAGCUCAGGAGGGAUAGCGCC
mdm-miR390c                  --AAGCUCAGGAGGGAUAGCGCC
mdm-miR390f                  --AAGCUCAGGAGGGAUAGCGCC
cpa-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
fve-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
gma-miR390b-5p               --AAGCUCAGGAGGGAUAGCACC
gma-miR390d                  --AAGCUCAGGAGGGAUAGCACC
stu-miR390-5p                --AAGCUCAGGAGGGAUAGCACC
sly-miR390a-5p               --AAGCUCAGGAGGGAUAGCACC
bol-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
bra-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
bra-miR390d                  --AAGCUCAGGAGGGAUAGCGCC
bra-miR390f                  --AAGCUCAGGAGGGAUAGCGCC
esa-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
mac-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
mac-miR390e                  --AAGCUCAGGAGGGAUAGCGCC
pvi-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
pvi-miR390d                  --AAGCUCAGGAGGGAUAGCGCC
spo-miR390                   --AAGCUCAGGAGGGAUAGCGCC
ath-miR390a-5p               --AAGCUCAGGAGGGAUAGCGCC
ptc-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
ptc-miR390d-5p               --AAGCUCAGGAGGGAUAGCGCC
mtr-miR390                   --AAGCUCAGGAGGGAUAGCGCC
sbi-miR390                   --AAGCUCAGGAGGGAUAGCGCC
csi-miR390a-5p               --AAGCUCAGGAGGGAUAGCGCC
aly-miR390a-5p               --AAGCUCAGGAGGGAUAGCGCC
tcc-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
lus-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
gma-miR390f                  --AAGCUCAGGAGGGAUAGCGCC
mdm-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
mdm-miR390e                  --AAGCUCAGGAGGGAUAGCGCC
cpa-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
sly-miR390b-5p               --AAGCUCAGGAGGGAUAGCGCC
mes-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
fve-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
atr-miR390.2                 --AAGCUCAGGAGGGAUAGCGCC
ppe-miR390                   --AAGCUCAGGAGGGAUAGCGCC
mdm-miR390d                  --AAGCUCAGGAGGGAUAGCGCC
mdm-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
lus-miR390d                  --AAGCUCAGGAGGGAUAGCGCC
lus-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
tcc-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
rco-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
zma-miR390b-5p               --AAGCUCAGGAGGGAUAGCGCC
gma-miR390a-5p               --AAGCUCAGGAGGGAUAGCGCC
ppt-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
ptc-miR390c                  --AAGCUCAGGAGGGAUAGCGCC
osa-miR390-5p                --AAGCUCAGGAGGGAUAGCGCC
zos-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
sit-miR390                   --AAGCUCAGGAGGGAUAGCGCC
pvi-miR390c                  --AAGCUCAGGAGGGAUAGCGCC
pha-miR390                   --AAGCUCAGGAGGGAUAGCGCC
mac-miR390d                  --AAGCUCAGGAGGGAUAGCGCC
mac-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
cru-miR390b                  --AAGCUCAGGAGGGAUAGCGCC
bra-miR390e                  --AAGCUCAGGAGGGAUAGCGCC
bra-miR390c                  --AAGCUCAGGAGGGAUAGCGCC
bra-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
bol-miR390a                  --AAGCUCAGGAGGGAUAGCGCC
mpo-miR390-b3.0r1-12192      --AAGCUCAGGAGGGAUAGCGUC
atr-miR390.1                 UAAAGCUCAGGAGGGAUAGCG--
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