miRBase entry: mmu-mir-540

Stem-loop mmu-mir-540


Accession
MI0003518
Symbol
MGI: Mir540
Description
Mus musculus mmu-mir-540 precursor miRNA mir-540
Gene
family?
RF00776; mir-540

Literature search
5 open access papers mention mmu-mir-540
(15 sentences)

Sequence

23580 reads, 247 reads per million, 82 experiments
ugggcCAAGGGUCACCCUCUGACUCUGUggccaaggguagacAGGUCAGAGGUCGAUCCUGGgccua
((((((.((((((..((((((((.((((.(((...)))..))))))))))))..)))))).))))))

Structure
      A      AC        U    -g   a 
ugggcC AGGGUC  CCUCUGAC CUGU  gcc  
|||||| ||||||  |||||||| ||||  ||| a
auccgG UCCUAG  GGAGACUG GAca  ugg  
      G      CU        -    ga   g 


Annotation confidence High
Do you think this miRNA is real?

Genome context
chr12: 109586080-109586146 [+]
Clustered miRNAs
13 other miRNAs are < 10 kb from mmu-mir-540
Name Accession Chromosome Start End Strand Confidence




Database links

Mature mmu-miR-540-5p

Accession MIMAT0004786
Description Mus musculus mmu-miR-540-5p mature miRNA
Sequence 6 - CAAGGGUCACCCUCUGACUCUGU - 28
Evidence experimental
cloned [3], Illumina [4-5]
Database links
Predicted targets

Mature mmu-miR-540-3p

Accession MIMAT0003167
Description Mus musculus mmu-miR-540-3p mature miRNA
Sequence 43 - AGGUCAGAGGUCGAUCCUGG - 62
Evidence experimental
cloned [1,3], miRAP-cloned [2], Illumina [4]
Database links
Predicted targets

References

  1. PubMed ID: 17604727
    A mammalian microRNA expression atlas based on small RNA library sequencing
    "Landgraf P, Rusu M, Sheridan R, Sewer A, Iovino N, Aravin A, Pfeffer S, Rice A, Kamphorst AO, Landthaler M, Lin C, Socci ND, Hermida L, Fulci V, Chiaretti S, Foa R, Schliwka J, Fuchs U, Novosel A, Muller RU, Schermer B, Bissels U, Inman J, Phan Q, Chien M"
    "Cell (2007) 129:1401-1414

  2. PubMed ID: 20215419
    MicroRNA transcriptome in the newborn mouse ovaries determined by massive parallel sequencing
    "Ahn HW, Morin RD, Zhao H, Harris RA, Coarfa C, Chen ZJ, Milosavljevic A, Marra MA, Rajkovic A"
    "Mol Hum Reprod (2010) 16:463-471

  3. PubMed ID: 20413612
    Mammalian microRNAs: experimental evaluation of novel and previously annotated genes
    "Chiang HR, Schoenfeld LW, Ruby JG, Auyeung VC, Spies N, Baek D, Johnston WK, Russ C, Luo S, Babiarz JE, Blelloch R, Schroth GP, Nusbaum C, Bartel DP"
    "Genes Dev (2010) 24:992-1009

  4. PubMed ID: 16274478
    Identification of clustered microRNAs using an ab initio prediction method
    Sewer A, Paul N, Landgraf P, Aravin A, Pfeffer S, Brownstein MJ, Tuschl T, van Nimwegen E, Zavolan M
    BMC Bioinformatics (2005) 6:267

  5. PubMed ID: 16973894
    Mouse microRNA profiles determined with a new and sensitive cloning method
    "Takada S, Berezikov E, Yamashita Y, Lagos-Quintana M, Kloosterman WP, Enomoto M, Hatanaka H, Fujiwara S, Watanabe H, Soda M, Choi YL, Plasterk RH, Cuppen E, Mano H"
    "Nucleic Acids Res (2006) 34:e115