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-miR2118g

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UUCCUGAUGCCUCCUAUUCCUA

miRBase

Precursor miRNA Sequence(5'-3')

GCCAGGAAAAGGAUGAAAGAUUCUAAGAGCACUAGGAAUAGGAACAUGAAGGAAAGCAUUAUUGUGCAUGGAGAUUUAGGCCUGAUGUUUUCCUGAUGCCUCCUAUUCCUAAGGCUCUUAGGUUCUCCUUCCCUUUCCUUAUGGC

miRBase

Precursor miRNA Structure(5'-3') 

    ---     A   UGAA   U         AC           -A   GA            UU U  A   A 
GCCA   GGAAA GGA    AGA UCUAAGAGC  UAGGAAUAGGA  CAU  AGGAAAGCAUUA  G GC UGG G
||||   ||||| |||    ||| |||||||||  |||||||||||  |||  ||||||||||||  | || |||  
CGGU   CCUUU CCU    UCU GGAUUCUCG  AUCCUUAUCCU  GUA  UCCUUUUGUAGU  C CG AUU U
    AUU     C   -UCC   U         GA           CC   -G            -- -  G   U

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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