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

dca-miR827-b2.0r1-20623

Organism

Daucus carota

Species

Mature miRNA Sequence(5'-3')

UUAGAUGAUCAUCAGCAAACA

Plant sRNA Gene (Penn State Uni)

Precursor miRNA Sequence(5'-3')

CAGGAGGCAUAAUAUUUUGCAUAUAUGGAUUUGUUUGUUGAUGGUCAUCUAAACAUUUUUUCGGGUUUUCGUGUUUGAAGCUGCCUGUAGGAAUUAUGGUUAGAUGAUCAUCAGCAAACACGUUCAUCUAUCCAUAUUCAACCAU

Precursor miRNA Structure(5'-3') 

CAGGAGGCAUAAUAUUUUGCAUAU      U                    AA   --     -     --     U 
                        AUGGAU UGUUUGUUGAUGGUCAUCUA  CAU  UUUUU CGGGU  UUUCG G
                        |||||| ||||||||||||||||||||  |||  ||||| |||||  |||||  
                        UACUUG ACAAACGACUACUAGUAGAU  GUA  AAGGA GUCCG  GAAGU U
------UACCAACUUAUACCUAUC      C                    UG   UU     U     UC     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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