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

bra-miR168b

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UCGCUUGGUGCAGGUCGGGAC

PmiREN

Precursor miRNA Sequence(5'-3')

AGTCACCGCCGGGCTCGGATTCGCTTGGTGCAGGTCGGGACTAATTCGCTGACACAGCCACGTGGATTTTCCTTATTGGTTTGTGAGCAGGGATTGGATCCCGCCTTGCATCAACTGAATCGGAGCCTCGATGGTGAAAG

PmiREN

Precursor miRNA Structure(5'-3') 

-AG      C  -     G      C          U     -       --   G   C     -CGU     
   UCACCG CG GGCUC GAUUCG UUGGUGCAGG CGGGA CUAAUUC  GCU ACA AGCCA    GGAU 
   |||||| || ||||| |||||| |||||||||| ||||| |||||||  ||| ||| |||||    ||| U
   AGUGGU GC CCGAG CUAAGU AACUACGUUC GCCCU GGUUAGG  CGA UGU UUGGU    CCUC 
GAA      A  U     G      C          C     A       GA   G   -     UAUU

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

dca-miR168-b2.0r1-553        UCGCUUGGUGCAGGUCGGGACC
dca-miR168-b2.0r1-3777       UCGCUUGGUGCAGGUCGGGACC
dca-miR168-b2.0r1-26801      UCGCUUGGUGCAGGUCGGGACC
pha-miR168                   UCGCUUGGUGCAGAUCGGGAC-
pvi-miR168a                  UCGCUUGGUGCAGAUCGGGAC-
pvi-miR168b                  UCGCUUGGUGCAGAUCGGGAC-
sit-miR168                   UCGCUUGGUGCAGAUCGGGAC-
hvu-miR168-5p                UCGCUUGGUGCAGAUCGGGAC-
osa-miR168a-5p               UCGCUUGGUGCAGAUCGGGAC-
sbi-miR168                   UCGCUUGGUGCAGAUCGGGAC-
zma-miR168a-5p               UCGCUUGGUGCAGAUCGGGAC-
zma-miR168b-5p               UCGCUUGGUGCAGAUCGGGAC-
bdi-miR168-5p                UCGCUUGGUGCAGAUCGGGAC-
bol-miR168b                  UCGCUUGGUGCAGGUCGGGACU
bra-miR168b                  UCGCUUGGUGCAGGUCGGGAC-
bra-miR168c                  UCGCUUGGUGCAGGUCGGGAC-
sly-miR168a-5p               UCGCUUGGUGCAGGUCGGGAC-
sly-miR168b-5p               UCGCUUGGUGCAGGUCGGGAC-
gma-miR168b                  UCGCUUGGUGCAGGUCGGG---
mac-miR168j                  UCGCUUGGUGCAGGUCGGGGC-
bol-miR168a                  UCGCUUGGUGCAGGUCGGGA--
bol-miR168c                  UCGCUUGGUGCAGGUCGGGA--
bra-miR168a                  UCGCUUGGUGCAGGUCGGGAAC
spo-miR168b                  -CGCUUGGUGCAGGUCGGGAAC
bra-miR168d                  UCGCUUGGUGCAGGUCGGGAAC
bra-miR168e                  UCGCUUGGUGCAGGUCGGGAAC
bra-miR168f                  UCGCUUGGUGCAGGUCGGGAAC
cru-miR168a                  UCGCUUGGUGCAGGUCGGGAA-
cru-miR168b                  UCGCUUGGUGCAGGUCGGGAA-
esa-miR168a                  UCGCUUGGUGCAGGUCGGGAA-
esa-miR168b                  UCGCUUGGUGCAGGUCGGGAA-
esa-miR168c                  UCGCUUGGUGCAGGUCGGGAA-
mac-miR168a                  UCGCUUGGUGCAGGUCGGGAA-
mac-miR168b                  UCGCUUGGUGCAGGUCGGGAA-
mac-miR168c                  UCGCUUGGUGCAGGUCGGGAA-
mac-miR168d                  UCGCUUGGUGCAGGUCGGGAA-
mac-miR168e                  UCGCUUGGUGCAGGUCGGGAA-
mac-miR168f                  UCGCUUGGUGCAGGUCGGGAA-
mac-miR168g                  UCGCUUGGUGCAGGUCGGGAA-
mac-miR168h                  UCGCUUGGUGCAGGUCGGGAA-
mac-miR168i                  UCGCUUGGUGCAGGUCGGGAA-
spo-miR168a                  UCGCUUGGUGCAGGUCGGGAA-
spo-miR168c                  UCGCUUGGUGCAGGUCGGGAA-
ath-miR168a-5p               UCGCUUGGUGCAGGUCGGGAA-
gma-miR168a                  UCGCUUGGUGCAGGUCGGGAA-
ptc-miR168b-5p               UCGCUUGGUGCAGGUCGGGAA-
ccl-miR168                   UCGCUUGGUGCAGGUCGGGAA-
aly-miR168b-5p               UCGCUUGGUGCAGGUCGGGAA-
mtr-miR168c-5p               UCGCUUGGUGCAGGUCGGGAA-
lus-miR168b                  UCGCUUGGUGCAGGUCGGGAA-
ppe-miR168                   UCGCUUGGUGCAGGUCGGGAA-
csi-miR168-5p                UCGCUUGGUGCAGGUCGGGAA-
spo-miR168d                  UCGCUUGGUGCAGGUCGGGAA-
esa-miR168d                  UCGCUUGAUGCAGGUCGGGAAU
ath-miR168b-5p               UCGCUUGGUGCAGGUCGGGAA-
ptc-miR168a-5p               UCGCUUGGUGCAGGUCGGGAA-
vvi-miR168                   UCGCUUGGUGCAGGUCGGGAA-
aly-miR168a-5p               UCGCUUGGUGCAGGUCGGGAA-
mtr-miR168b                  UCGCUUGGUGCAGGUCGGGAA-
lus-miR168a                  UCGCUUGGUGCAGGUCGGGAA-
mdm-miR168b                  UCGCUUGGUGCAGGUCGGGAA-
fve-miR168-5p                UCGCUUGGUGCAGGUCGGGAA-
atr-miR168                   UCGCUUGGUGCAGGUCGGGAA-
mdm-miR168a                  UCGCUUGGUGCAGGUCGGGAA-
mes-miR168a                  UCGCUUGGUGCAGGUCGGGAA-
tcc-miR168                   UCGCUUGGUGCAGGUCGGGAA-
rco-miR168                   UCGCUUGGUGCAGGUCGGGAA-
zos-miR168                   UUGCUUGGUGCAGGUCGGGAA-
mtr-miR168a                  UUGCUUGGUGCUGGUCGGGAA-
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