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

zma-miR395a-5p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

GUUCUCCUCAAACCACUUCAGUU

miRBase

Precursor miRNA Sequence(5'-3')

UAUUGGUUGGUUGUCACCUGGAGUUCUCCUCAAACCACUUCAGUUGCUGCACCUAGCUAGUUUAAUGGCACUGUGCUUGCGUGCAAGCGGCCGGAGCUGUGUGUAGCUAGUGAAGUGUUUGGGGGAACUCUGGGUGUCAAUCAGCAAUU

miRBase

Precursor miRNA Structure(5'-3') 

UAUUG        U               U     C      G U       C     AGUUUAA    ACUG      C 
     GUUGGUUG CACCUGGAGUUCUCC CAAAC ACUUCA U GCUGCAC UAGCU       UGGC    UGCUUG G
     |||||||| ||||||||||||||| ||||| |||||| | ||||||| |||||       ||||    ||||||  
     CGACUAAC GUGGGUCUCAAGGGG GUUUG UGAAGU A CGAUGUG GUCGA       GCCG    GCGAAC C
-UUAA        U               -     -      G U       U     ------G    ----      G

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

zma-miR395a-5p      ---GUUCUCCUCAAACCACUUCAGUU
bdi-miR395e-5p      ---GUUCUCCUCAAAUCACUUCAGU-
ppe-miR395a-5p      ---GUUC-CCUCAAA-CACUUCAUU-
ppe-miR395b-5p      ---GUUC-CCUCAAA-CACUUCAUU-
ppe-miR395o         ---GUUC-CCUCAAA-CACUUCAUU-
mdm-miR395k         ---GUUU-CCUCAAA-CACUUCAUU-
aly-miR395d-5p      ---GUUC-UCCCGAA-CACUUCAUUG
pvi-miR395d         -UGAAGUGUUUGGGAGAACUC-----
gma-miR395h         AUGAAGUGUUUGGGAGAACUC-----
                                  *  ***