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-miR158b

Organism

Eutrema salsugineum

Species

Mature miRNA Sequence(5'-3')

UUUUCCAAAUGUUGACAAAGCA

PmiREN

Precursor miRNA Sequence(5'-3')

AAAACGTTGTCTCGGTATTTCTTTGTCTACTTTGGGAAAAAATGGTACGCCATTGCATTTTTTTCCAAATGTTGACAAAGCATCACCGTGATGACGTCATGA

PmiREN

Precursor miRNA Structure(5'-3') 

--AAA        U    AU U       U  -              GUAC 
     ACGUUGUC CGGU  U CUUUGUC AC UUUGGGAAAAAAUG    G
     |||||||| ||||  | ||||||| || ||||||||||||||    C
     UGCAGUAG GCCA  A GAAACAG UG AAACCUUUUUUUAC    U
AGUAC        U    CU C       U  U              GUUA

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

bra-miR158b         --UCCCAAAUGUAGACAAAGCA
aly-miR158b-3p      --UCCCAAAUGUAGACAAAGC-
ath-miR158a-3p      --UCCCAAAUGUAGACAAAGCA
aly-miR158a-3p      --UCCCAAAUGUAGACAAAGCA
ath-miR158b         --CCCCAAAUGUAGACAAAGCA
esa-miR158b         UUUUCCAAAUGUUGACAAAGCA
bol-miR158          -UUUCCAAAUGUAGACAAAGCA
bra-miR158a         -UUUCCAAAUGUAGACAAAGCA
esa-miR158a         -UUUCCAAAUGUAGACAAAGCA
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