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-miR170-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UAUUGGCCUGGUUCACUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

CAUUCUCUCUCUUCGAUUCUUGUUUCUCUUGCAAAACAGAUACCCUCUGUCUCUGAGUCCGAGAGAGUCCCUCUGAUAUUGGCCUGGUUCACUCAGAUUCUCCUAACUAACUCAUCUGAUUGAGCCGUGUCAAUAUCUCAGUCCUCUCUCGUCGCUUCUCUCAUACUUUAGAGAUUGUUUUGUUUUGUACACACGAGUUGUUUGUUGAUAUG

miRBase

Precursor miRNA Structure(5'-3') 

CAUUC  UCUCUU      U   UUCUCU           -  CC     -UCUC    ------UC        UCC  CU         C       C      UCUCCU 
     UC      CGAUUC UGU      UGCAAAACAGA UA  CUCUG     UGAG        CGAGAGAG   CU  GAUAUUGGC UGGUUCA UCAGAU      A
     ||      |||||| |||      ||||||||||| ||  |||||     ||||        ||||||||   ||  ||||||||| ||||||| ||||||      A
     AG      GUUGAG ACA      AUGUUUUGUUU GU  GAGAU     ACUC        GCUCUCUC   GA  CUAUAACUG GCCGAGU AGUCUA      A
-GUAU  UUGUUU      C   -----C           U  UA     UUCAU    UCUUCGCU        -CU  CU         U       U      CUCAAU

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

bra-miR170          UAUUGGCCUGGUUCACUCAGA
ath-miR170-5p       UAUUGGCCUGGUUCACUCAGA
ath-miR171a-5p      UAUUGGCCUGGUUCACUCAGA
aly-miR170-5p       UAUUGGCCUGGUUCACUCAGA
aly-miR171a-5p      UAUUGGCCUGGUUCACUCAGA
gma-miR171j-5p      UAUUGGCCUGGUUCACUCAGA
stu-miR171a-5p      UAUUGGCCUGGUUCACUCAGA
stu-miR171c-5p      UAUUGGCCUGGUUCACUCAGA
sly-miR171f         UAUUGGCCUGGUUCACUCAGA
csi-miR171f-5p      UAUUGGCCUGGUUCACUCAGA
zma-miR171a-5p      UAUUGGCGAGGUUCAAUCAGA
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