miRBase entry: ath-MIR393b

Stem-loop ath-MIR393b


Accession
MI0001004
Description
Arabidopsis thaliana ath-MIR393b precursor miRNA
Gene family
MIPF0000083; MIR393

Literature search
31 open access papers mention ath-MIR393b
(79 sentences)

Sequence

agagaaaggaUCCAAAGGGAUCGCAUUGAUCCuaauuaagcugauuuauuccccaauaauuguuuuuuuuuuccuucucaaucgaaagauggaagaaaaacaaauuccaaacauuuugcuuacuuuuccggAUCAUGCGAUCUCUUUGGAUUcauucuuu
.(((((.(((((((((((((((((((.(((((.((.(((((....(((((....)))))(((((((((..((((.(((........))).)))))))))))))..............)))))..))...)))))))))))))))))))))))).))))).

Structure
a     a                   U     --u  -u     ugauuuauuccccaauaa         uu    u   caa 
 gagaa ggaUCCAAAGGGAUCGCAU GAUCC   aa  uaagc                  uuguuuuuu  uucc ucu   u
 ||||| ||||||||||||||||||| |||||   ||  |||||                  |||||||||  |||| |||    
 uucuu cUUAGGUUUCUCUAGCGUA CUAgg   uu  auucg                  aacaaaaag  aagg aga   c
u     a                   -     ccu  uc     ----uuuuacaaaccuua         --    u   aag 


Annotation confidence Not enough data
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Comments
This sequence belongs to the miR393 family of miRNAs, which are predicted to target mRNAs coding for F-box proteins and bHLH transcription factors [1].

Genome context
chr3: 20691647-20691806 [+]

Database links

Mature ath-miR393b-5p

Accession MIMAT0000935
Description Arabidopsis thaliana ath-miR393b-5p mature miRNA
Sequence 11 - UCCAAAGGGAUCGCAUUGAUCC - 32
Evidence experimental
5'RACE [1], Northern [1-2], PCR [1], cloned [2], 454 [3], MPSS [3-4]

Mature ath-miR393b-3p

Accession MIMAT0031906
Description Arabidopsis thaliana ath-miR393b-3p mature miRNA
Sequence 132 - AUCAUGCGAUCUCUUUGGAUU - 152
Evidence experimental
Illumina [5]

References

  1. PubMed ID: 16954541
    MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant
    "Lu C, Kulkarni K, Souret FF, MuthuValliappan R, Tej SS, Poethig RS, Henderson IR, Jacobsen SE, Wang W, Green PJ, Meyers BC"
    "Genome Res (2006) 16:1276-1288

  2. PubMed ID: 17182867
    A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana
    "Rajagopalan R, Vaucheret H, Trejo J, Bartel DP"
    "Genes Dev (2006) 20:3407-3425

  3. PubMed ID: 15200956
    Computational identification of plant microRNAs and their targets, including a stress-induced miRNA
    "Jones-Rhoades MW, Bartel DP"
    "Mol Cell (2004) 14:787-799

  4. PubMed ID: 15258262
    Novel and stress-regulated microRNAs and other small RNAs from Arabidopsis
    "Sunkar R, Zhu JK"
    "Plant Cell (2004) 16:2001-2019

  5. PubMed ID: 24119003
    Integrated RNA-seq and sRNA-seq analysis identifies novel nitrate-responsive genes in Arabidopsis thaliana roots
    Vidal EA, Moyano TC, Krouk G, Katari MS, Tanurdzic M, McCombie WR, Coruzzi GM, Gutiérrez RA
    BMC Genomics (2013) 14:701