miRBase entry: rno-mir-542-3

Stem-loop rno-mir-542-3


Accession
MI0031782
Description
Rattus norvegicus rno-mir-542-3 precursor miRNA
Gene family
MIPF0000185; mir-542

Literature search
9 open access papers mention rno-mir-542-3
(30 sentences)

Sequence

52834 reads, 80 reads per million, 479 experiments
ucucagacguCUCGGGGAUCAUCAUGUCACGAgauaccacugcgcacuUGUGACAGAUUGAUAACUGAAAggucuggga
((((((((.(.((((..((((...(((((((((.............)))))))))...))))..)))).).))))))))

Structure
        g C    GG    UCA         auacc 
ucucagac u UCGG  AUCA   UGUCACGAg     a
|||||||| | ||||  ||||   |||||||||     c
agggucug A AGUC  UAGU   ACAGUGUuc     u
        g A    AA    UAG         acgcg 


Annotation confidence High
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Genome context
chrX: 158588529-158588607 [+]
Clustered miRNAs
4 other miRNAs are < 10 kb from rno-mir-542-3
Name Accession Chromosome Start End Strand Confidence




Database links

Mature rno-miR-542-5p

Accession MIMAT0003178
Description Rattus norvegicus rno-miR-542-5p mature miRNA
Sequence 11 - CUCGGGGAUCAUCAUGUCACGA - 32
Evidence experimental
cloned [1-2], SOLiD [3]

Mature rno-miR-542-3p

Accession MIMAT0003179
Description Rattus norvegicus rno-miR-542-3p mature miRNA
Sequence 49 - UGUGACAGAUUGAUAACUGAAA - 70
Evidence experimental
cloned [2], SOLiD [3]

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: 20403161
    Small RNA expression and strain specificity in the rat
    Linsen SE, de Wit E, de Bruijn E, Cuppen E
    BMC Genomics (2010) 11:249

  3. 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