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

bra-miR2111a

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UAAUCUGCAUCCUGAGGUUUA

PmiREN

Precursor miRNA Sequence(5'-3')

AAGTATTGGTGAGGACCGGGTAATCTGCATCCTGAGGTTTAAAGCTTGATTATACGCATAACATGCCGACGCATATAACTATGTGTTTTAGAATAGCTTTTAGTCCTCGGGATGCGGATTACCTCTTCCTTACTATACGTACA

PmiREN

Precursor miRNA Structure(5'-3') 

---AA    U        CC                    -UUU      -UGAUUAU       ---AC    C 
     GUAU GGUGAGGA  GGGUAAUCUGCAUCCUGAGG    AAAGCU        ACGCAUA     AUGC G
     |||| ||||||||  ||||||||||||||||||||    ||||||        |||||||     ||||  
     CAUA UCAUUCCU  UCCAUUAGGCGUAGGGCUCC    UUUCGA        UGUGUAU     UACG G
ACAUG    -        UC                    UGAU      UAAGAUUU       CAAUA    C

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

aly-miR2111a-5p      UAAUCUGCAUCCUGAGGUUUA-
aly-miR2111b-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111k         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111j         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111b         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111o         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111n         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111m-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111i         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111h         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111g-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111e-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111d-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111c         UAAUCUGCAUCCUGAGGUUUA-
ath-miR2111b-5p      UAAUCUGCAUCCUGAGGUUUA-
ath-miR2111a-5p      UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111e         UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111b         UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111a         UAAUCUGCAUCCUGAGGUUUA-
csi-miR2111-5p       UAAUCUGCAUCCUGAGGUUUG-
ptc-miR2111b         UAAUCUGCAUCCUGAGGUUUG-
ptc-miR2111a         UAAUCUGCAUCCUGAGGUUUG-
atr-miR2111          UAAUCUGUAUCUUGAGGUUUGG
                     ******* *** ********