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

zos-miR858

Organism

Zostera marina

Species

Mature miRNA Sequence(5'-3')

UUCGUUGUCUGUUCGACCUUG

PmiREN

Precursor miRNA Sequence(5'-3')

ATCGATCTATACATGTAAGTAGGTTAGAACAGATATAAGAAAGAGAAGAGCTTCCTGCAGCCAGCCGGGTGAGTAGTTGCCATACTATTCTTGTCAAGTAAACAGATCTTAGCAGATCAATCTTATCTTCGTTGTCTGTTCGACCTTGATAACTCGCATGTATTAATC

PmiREN

Precursor miRNA Structure(5'-3') 

AUC   CU        A   -----     A         UAA   A  G    GCUUC    AGCCAGCCGGGUGAGUAGUUGCCAU 
   GAU  AUACAUGU AGU     AGGUU GAACAGAUA   GAA GA AAGA     CUGC                         A
   |||  |||||||| |||     ||||| |||||||||   ||| || ||||     ||||                         C
   CUA  UAUGUACG UCA     UCCAG CUUGUCUGU   CUU CU UUCU     GACG                         U
---   AU        C   AUAGU     -         -UG   -  A    AACUA    AUUCUAGACAAAUGAACUGUUCUUA

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

bra-miR858b        UUUCGUUGUCUGUUCGACCUU-
ath-miR858a        UUUCGUUGUCUGUUCGACCUU-
aly-miR858-5p      UUUCGUUGUCUGUUCGACCUU-
ppe-miR858         -CUCGUUGUCUGUUCGACCUUG
csi-miR858-3p      -CUCGUUGUCUGUUCGACCUUG
ath-miR858b        -UUCGUUGUCUGUUCGACCUUG
zos-miR858         -UUCGUUGUCUGUUCGACCUUG
bra-miR858a        -UUCGUUGUCUGUUCGACCUUG
mdm-miR858         -UUCGUUGUCUGUUCGACCUGA
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