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

esa-miR395h

Organism

Eutrema salsugineum

Species

Mature miRNA Sequence(5'-3')

UGAAGUGUUUGGGGGGGACUC

PmiREN

Precursor miRNA Sequence(5'-3')

AGAGTCAAATGTCCCCTTGAGTTCCCTTTAACGCTTCATTGTTCATACTTGGTTGTCTGATATCTACCGATAAATCAATCTAATGTACACTGAAGTGTTTGGGGGGGACTCTAGGTGGTATATTGGCACCG

PmiREN

Precursor miRNA Structure(5'-3') 

-AGA     A   -  -   U             -       U   U   ACUU     UCUGA    U 
    GUCAA UGU CC CCU GAGUUCCCUUUAA CGCUUCA UGU CAU    GGUUG     UAUC A
    ||||| ||| || ||| ||||||||||||| ||||||| ||| |||    |||||     ||||  
    CGGUU AUA GG GGA CUCAGGGGGGGUU GUGAAGU ACA GUA    CUAAC     AUAG G
GCCA     -   U  U   U             U       C   U   --AU     --UAA    C

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

cru-miR395a         -UGAAGUGUUUGAGGGUGACUC
esa-miR395h         -UGAAGUGUUUGGGGGGGACUC
cru-miR395b         CUGAAGUGUUUGGGGG-GACUC
cru-miR395f         CUGAAGUGUUUGGGGG-GACUC
esa-miR395i         CUGACGUGUUUGGGGG-GACUC
cru-miR395g         CUGAAGUGUUUGGGGG-GACUC
cru-miR395i         CUGAAGUGUUUGGGGG-GACUC
esa-miR395a         CUGAAGUGUUUGGGGG-GACUC
esa-miR395b         CUGAAGUGUUUGGGGG-GACUC
esa-miR395c         CUGAAGUGUUUGGGGG-GACUC
ath-miR395b         CUGAAGUGUUUGGGGG-GACUC
ath-miR395c         CUGAAGUGUUUGGGGG-GACUC
ath-miR395f         CUGAAGUGUUUGGGGG-GACUC
aly-miR395b-3p      CUGAAGUGUUUGGGGG-GACUC
aly-miR395f-3p      CUGAAGUGUUUGGGGG-GACUC
aly-miR395h-3p      CUGAAGUGUUUGGGGG-GACUC
aly-miR395c-3p      CUGAAGUGUUUGGGGG-GACUU
zma-miR395o-3p      GUGAAGUGUUUGGGUG-AACUC
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