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, 138 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 Medium

Genome context

chr12: 109586080-109586146 [+]

Clustered miRNAs

13 other miRNAs are < 10 kb from mmu-mir-540

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]

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]

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