Stem-loop ath-MIR397b

Accession

MI0001016

Description

Arabidopsis thaliana ath-MIR397b precursor miRNA

Literature search

13 open access papers mention ath-MIR397b
(35 sentences)

Sequence

77062 reads, 358.0 reads per million, 149 experiments

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 High

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

Mature ath-miR397b-5p

• Accession: MIMAT0000947
• Description: Arabidopsis thaliana ath-miR397b-5p mature miRNA
• Sequence: 10 - AUCAUUGAGUGCAUCGUUGAUGU - 32
• Evidence: experimental ; 5'RACE [1,3], PCR [1], cloned [2], Northern [2], 454 [4-5]

Mature ath-miR397b-3p

• Accession: MIMAT0053827
• Description: Arabidopsis thaliana ath-miR397b-3p mature miRNA
• Sequence: 80 - AUCAGCGUUGCAUUCAAUUAUGU - 102
• Evidence: experimental ; unknown

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