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-miR845b-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UCGCUCUGAUACCAAAUGAUG

miRBase

Precursor miRNA Sequence(5'-3')

AGUUCCAUCACUAGGUUUCCAUCACAUCAAUUGGUAUCAGAGCAACGCAUGAUGUAUAAUAACUAAGCGUCGCUCUGAUACCAAAUGAUGCAAUGUAAACAUGGAUAUUGCU

miRBase

Precursor miRNA Structure(5'-3') 

----AGU     CACUAG    C   CA     A             A    AUGAUGUA 
       UCCAU      GUUU CAU  CAUCA UUGGUAUCAGAGC ACGC        U
       |||||      |||| |||  ||||| ||||||||||||| ||||         
       AGGUA      CAAA GUA  GUAGU AACCAUAGUCUCG UGCG        U
UCGUUAU     ------    U   AC     A             C    AAUCAAUA

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

vvi-miR845a          UAGCUCUGAUACCAAUU-GAUA----
vvi-miR845b          UAGCUCUGAUACCAAUU-GAUA----
bra-miR845           CGGCUCUGAUACCAAUU-GAUG----
esa-miR845           CGGCUCUGAUACCAAUU-GAUG----
ath-miR845a          CGGCUCUGAUACCAAUU-GAUG----
vvi-miR845c          AGGCUCUGAUACCAAUU-GAUG----
vvi-miR845d          UGGCUCUGAUACCAAUU-GAUG----
vvi-miR845e          UGGCUCUGAUACCAAUU-GAUG----
aly-miR845b-3p       UCGCUCUGAUACCAAAU-GAUG----
ath-miR845b          UCGCUCUGAUACCAAAUUGAUG----
ath-miR829-3p.1      -AGCUCUGAUACCAAAU-GAUGGAAU
bdi-miR845           -UGCUCUGAUACCAAUU-GUUGG---
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