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-miR827-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UUAGAUGACCAUCAACAAACG

miRBase

Precursor miRNA Sequence(5'-3')

UACAUCUUUAACUUCCAUGAAACAUUAUAGGGUUUUUUCUCUCUUGCAACCCUUGAAUGUGUUUGUUGAUUGACAUCUAUACAUAUCGAUAAUCCUAUCGUGUUGAUAGAUCGAUUGGUUUAGAUGACCAUCAACAAACGCUUUCGUGGUUUUGCAUCGCUUCUUGAAAUCUUGAUCAUGUUUUUAGCAUCUUUGUA

miRBase

Precursor miRNA Structure(5'-3') 

UACAUCUUUAACUUCCAU       -UA         -UUCUCUCU     -C  U    U            U A      U  AU      AAUC     G 
                  GAAACAU   UAGGGUUUU         UGCAA  CC UGAA GUGUUUGUUGAU G CAUCUA AC  AUCGAU    CUAUC U
                  |||||||   |||||||||         |||||  || |||| |||||||||||| | |||||| ||  ||||||    ||||| G
                  UUUUGUA   GUUCUAAAG         ACGUU  GG GCUU CGCAAACAACUA C GUAGAU UG  UAGCUA    GAUAG G
-----AUGUUUCUACGAU       CUA         UUCUUCGCU     UU  U    U            C A      U  GU      ----     U

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

cru-miR827                   UUAGAUGACCAUCAACAAACG
esa-miR827                   UUAGAUGACCAUCAACAAACG
aly-miR827-3p                UUAGAUGACCAUCAACAAACG
ath-miR827                   UUAGAUGACCAUCAACAAACU
tcc-miR827                   UUAGAUGACCAUCAACAAACA
fve-miR827                   UUAGAUGACCAUCAACAAACA
csi-miR827                   UUAGAUGACCAUCAACAAACA
bra-miR827                   UUAGAUGACCAUCAACAAAUA
ppe-miR827                   UUAGAUGACCAUCAACAAACA
mes-miR827                   UUAGAUGACCAUCAACAAACA
stu-miR827-3p                UUAGAUGAACAUCAACAAACA
sly-miR827                   UUAGAUGAACAUCAACAAACA
mac-miR827                   UUAGAUGACCAUCAGCAAACA
pvi-miR827                   UUAGAUGACCAUCAGCAAACA
osa-miR827                   UUAGAUGACCAUCAGCAAACA
zma-miR827-3p                UUAGAUGACCAUCAGCAAACA
bdi-miR827-3p                UUAGAUGACCAUCAGCAAACA
dca-miR827-b2.0r1-20623      UUAGAUGAUCAUCAGCAAACA
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