miRBase entry: ath-MIR397b

Stem-loop ath-MIR397b


Accession
MI0001016
Description
Arabidopsis thaliana ath-MIR397b precursor miRNA
Gene family
MIPF0000120; MIR397

Literature search
11 open access papers mention ath-MIR397b
(31 sentences)

Sequence

ugaaugaacaUCAUUGAGUGCAUCGUUGAUGuaauuuuacuuauuuuauuccauuguugaauuaauuaaagaaguauauaucagcguugcauucaauuauguuuuucua
.(((.((((((.((((((((((.((((((((((....(((((.(((((....(((....)))....)))))))))))))))))))).)))))))))).)))))))))..

Structure
-u   u      C          U          auuu     a     uucc   g 
  gaa gaacaU AUUGAGUGCA CGUUGAUGua    uacuu uuuua    auu u
  ||| |||||| |||||||||| ||||||||||    ||||| |||||    |||  
  cuu uuugua uaacuuacgu gcgacuauau    augaa gaaau    uaa u
au   -      u          u          ----     -     uaau   g 


Annotation confidence Not enough data
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Comments
This sequence belongs to the miR397 family of miRNAs, which are predicted to target mRNAs coding for laccases and beta-6 tubulin [1].

Genome context
chr4: 7878652-7878760 [-]
Clustered miRNAs
3 other miRNAs are < 10 kb from ath-MIR397b
Name Accession Chromosome Start End Strand Confidence




Database links

Mature ath-miR397b

Accession MIMAT0000947
Description Arabidopsis thaliana ath-miR397b mature miRNA
Sequence 11 - UCAUUGAGUGCAUCGUUGAUG - 31
Evidence experimental
5'RACE [1,3], PCR [1], cloned [2], Northern [2], 454 [4-5]

References

  1. PubMed ID: 16040653
    Expression of Arabidopsis MIRNA genes
    "Xie Z, Allen E, Fahlgren N, Calamar A, Givan SA, Carrington JC"
    "Plant Physiol (2005) 138:2145-2154

  2. 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

  3. 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

  4. 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

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