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-miR2118e

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UUCCUGAUGUCUCCCAUUCCUA

miRBase

Precursor miRNA Sequence(5'-3')

CCAAGGAAGUGGAAGAAAGAGAAUGUCUAAGAGCAGUGGGAAUGGAAACAUGAAGGAAAGCAUGAACUAUGUUCUUUUUUCUGAAUGUUUUCCUGAUGUCUCCCAUUCCUACGGUUCUUAGGUGCUCCUUCCUCUUCCUUUGG

miRBase

Precursor miRNA Structure(5'-3') 

    -     U     AAA   AAUG         A          - A    GA          ----------      
CCAA GGAAG GGAAG   GAG    UCUAAGAGC GUGGGAAUGG A ACAU  AGGAAAGCAU          GAACU 
|||| ||||| |||||   |||    ||||||||| |||||||||| | ||||  ||||||||||          |||| A
GGUU CCUUC CCUUC   CUC    GGAUUCUUG CAUCCUUACC U UGUA  UCCUUUUGUA          CUUGU 
    U     U     ---   --GU         G          C C    -G          AGUCUUUUUU

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

osa-miR2118m      UUCCUGAUGCCUCCCAUUCCUA
bdi-miR2118b      UUCCUGAUGCCUCCCAUUCCUA
osa-miR2118j      UUCCUGAUGCCUCCCAUUCCUA
osa-miR2118f      UUCCUGAUGCCUCCCAUUCCUA
zma-miR2118e      UUCCUGAUGUCUCCCAUUCCUA
osa-miR2118h      UUCCUGAUGCCUCUCAUUCCUA
osa-miR2118k      UUCCUGAUGCCUCUCAUUCCUA
zma-miR2118a      UUCCUGAUGCCUCUCAUUCCUA
osa-miR2118p      UUCCCGAUGCCUCCCAUGCCUA
osa-miR2118d      UUCCUGAUGCCUCCCAUGCCUA
osa-miR2118b      UUCCCGAUGCCUCCCAUUCCUA
osa-miR2118n      UUCCCGAUGCCUCCCAUUCCUA
zma-miR2118b      UUCCCGAUGCCUCCCAUUCCUA
osa-miR2118a      UUCUCGAUGCCUCCCAUUCCUA
bdi-miR2118a      UUUCCGAUGCCUCCCAUUCCUA
osa-miR2118c      UUCCCGAUGCCUCCUAUUCCUA
osa-miR2118q      UUCCCGAUGCCUCCUAUUCCUA
zma-miR2118g      UUCCUGAUGCCUCCUAUUCCUA
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