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

csi-miR535d-3p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

GUGCUCUCUACCAUUGUCAUA

miRBase

Precursor miRNA Sequence(5'-3')

AUCCUUGCCCAGACUCAAUACAAAUUUGCUUGACAAUGAGAGAGAGCACACCUGUCAGCAUUCGUGCAAAUGGCAAGGCUGUCUACUAGCGUGCUCUCUACCAUUGUCAUAAAAUUUGCUUAAAGCAGUUGAAUAUUGUCU

miRBase

Precursor miRNA Structure(5'-3') 

---AUCCUUGCCCAGACUCAAUA       GCU        AG         A CU  ---    AUUCG   A 
                       CAAAUUU   UGACAAUG  AGAGAGCAC C  GU   CAGC     UGC A
                       |||||||   ||||||||  ||||||||| |  ||   ||||     ||| A
                       GUUUAAA   ACUGUUAC  UCUCUCGUG G  CA   GUCG     ACG G
UCUGUUAUAAGUUGACGAAAUUC       -AU        CA         C AU  UCU    ---GA   G

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

csi-miR535c-3p      GUGCUCUCUACCAUUGUCAUA----
csi-miR535d-3p      GUGCUCUCUACCAUUGUCAUA----
csi-miR535b-3p      GUGCUCUCUACCAUUGUCAUA----
osa-miR5485         ----UGACAACUGGUAGCAGAGCAA
                        *  * **   *  ** *