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

aly-miR394b-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UUGGCAUUCUGUCCACCUCC

miRBase

Precursor miRNA Sequence(5'-3')

GAUCAUGCGGGUUUGACAAAAGAGUCUCUUACAGAGAUCUUUGGCAUUCUGUCCACCUCCUCUCUCUAUAUGUAUAUGUAUGAGCGCUGUCUUGUGAGGGGAGGUGGACAUAUUGCCAACAGAGAUCUGUUAGGGUUUCUUUGUAAAACCCCUCAUGAUU

miRBase

Precursor miRNA Structure(5'-3') 

       -C      G     A   U    U     GA   -      UUC              CUCUAUAUGUAUAUG 
GAUCAUG  GGGUUU ACAAA GAG CUCU ACAGA  UCU UUGGCA   UGUCCACCUCCUCU               U
|||||||  |||||| ||||| ||| |||| |||||  ||| ||||||   ||||||||||||||               A
UUAGUAC  CCCAAA UGUUU CUU GGGA UGUCU  AGA AACCGU   ACAGGUGGAGGGGA               A
       UC      A     -   U    U     AG   C      UAU              GUGUUCUGUCGCGAG

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

vvi-miR394c                  -UUGGCAUUCUGUCCACCUCCAU
mes-miR394c                  -UUGGCAUUCUGUCCACCUCCAU
vvi-miR394a                  -UUGGCAUUCUGUCCACCUCCAU
csi-miR394b-5p               -UUGGCAUUCUGUCCACCUCC--
fve-miR394                   -UUGGCAUUCUGUCCACCUCC--
sly-miR394-5p                -UUGGCAUUCUGUCCACCUCC--
atr-miR394                   -UUGGCAUUCUGUCCACCUCC--
cpa-miR394b                  -UUGGCAUUCUGUCCACCUCC--
cpa-miR394a                  -UUGGCAUUCUGUCCACCUCC--
ppe-miR394b                  -UUGGCAUUCUGUCCACCUCC--
stu-miR384-5p                -UUGGCAUUCUGUCCACCUCC--
mes-miR394b                  -UUGGCAUUCUGUCCACCUCC--
mdm-miR394b                  -UUGGCAUUCUGUCCACCUCC--
mdm-miR394a                  -UUGGCAUUCUGUCCACCUCC--
gma-miR394g                  -UUGGCAUUCUGUCCACCUCC--
ppe-miR394a                  -UUGGCAUUCUGUCCACCUCC--
lus-miR394b                  -UUGGCAUUCUGUCCACCUCC--
lus-miR394a                  -UUGGCAUUCUGUCCACCUCC--
mes-miR394a                  -UUGGCAUUCUGUCCACCUCC--
gma-miR394f                  -UUGGCAUUCUGUCCACCUCC--
gma-miR394e                  -UUGGCAUUCUGUCCACCUCC--
gma-miR394d                  -UUGGCAUUCUGUCCACCUCC--
bdi-miR394                   -UUGGCAUUCUGUCCACCUCC--
gma-miR394c-5p               -UUGGCAUUCUGUCCACCUCC--
tcc-miR394b                  -UUGGCAUUCUGUCCACCUCC--
tcc-miR394a                  -UUGGCAUUCUGUCCACCUCC--
csi-miR394a                  -UUGGCAUUCUGUCCACCUCC--
gma-miR394a-5p               -UUGGCAUUCUGUCCACCUCC--
gma-miR394b-5p               -UUGGCAUUCUGUCCACCUCC--
aly-miR394b-5p               -UUGGCAUUCUGUCCACCUCC--
aly-miR394a-5p               -UUGGCAUUCUGUCCACCUCC--
sbi-miR394b                  -UUGGCAUUCUGUCCACCUCC--
vvi-miR394b                  -UUGGCAUUCUGUCCACCUCC--
ptc-miR394b-5p               -UUGGCAUUCUGUCCACCUCC--
ptc-miR394a-5p               -UUGGCAUUCUGUCCACCUCC--
zma-miR394b-5p               -UUGGCAUUCUGUCCACCUCC--
zma-miR394a-5p               -UUGGCAUUCUGUCCACCUCC--
sbi-miR394a                  -UUGGCAUUCUGUCCACCUCC--
osa-miR394                   -UUGGCAUUCUGUCCACCUCC--
ath-miR394b-5p               -UUGGCAUUCUGUCCACCUCC--
ath-miR394a                  -UUGGCAUUCUGUCCACCUCC--
spo-miR394                   -UUGGCAUUCUGUCCACCUCC--
sit-miR394                   -UUGGCAUUCUGUCCACCUCC--
pvi-miR394c                  -UUGGCAUUCUGUCCACCUCC--
pvi-miR394b                  -UUGGCAUUCUGUCCACCUCC--
pvi-miR394a                  -UUGGCAUUCUGUCCACCUCC--
pha-miR394                   -UUGGCAUUCUGUCCACCUCC--
mac-miR394e                  -UUGGCAUUCUGUCCACCUCC--
mac-miR394d                  -UUGGCAUUCUGUCCACCUCC--
mac-miR394c                  -UUGGCAUUCUGUCCACCUCC--
mac-miR394b                  -UUGGCAUUCUGUCCACCUCC--
mac-miR394a                  -UUGGCAUUCUGUCCACCUCC--
esa-miR394b                  -UUGGCAUUCUGUCCACCUCC--
esa-miR394a                  -UUGGCAUUCUGUCCACCUCC--
cru-miR394b                  -UUGGCAUUCUGUCCACCUCC--
cru-miR394a                  -UUGGCAUUCUGUCCACCUCC--
bra-miR394e                  -UUGGCAUUCUGUCCACCUCC--
bra-miR394d                  -UUGGCAUUCUGUCCACCUCC--
bra-miR394c                  -UUGGCAUUCUGUCCACCUCC--
bra-miR394b                  -UUGGCAUUCUGUCCACCUCC--
bra-miR394a                  -UUGGCAUUCUGUCCACCUCC--
dca-miR394-b2.0r1-12914      UUUGGCAUUCUGUUCACCUCC--
                              ************ *******