miRBase entry: rno-mir-541

Stem-loop rno-mir-541


Accession
MI0003527
Description
Rattus norvegicus rno-mir-541 precursor miRNA
Gene family
MIPF0000213; mir-541

Literature search
5 open access papers mention rno-mir-541
(5 sentences)

Sequence

380169 reads, 3100 reads per million, 475 experiments
gccaaaaucagagAAGGGAUUCUGAUGUUGGUCACACUccaagaauuuuaaaaugAGUGGCGAACACAGAAUCCAUACucugcuuauggc
((((.((.(((((...((((((((.((((.(((((.....................))))).))))))))))))...))))).)).))))

Structure
    a  u     AAG        A    G     ACUccaaga 
gcca aa cagag   GGAUUCUG UGUU GUCAC         a
|||| || |||||   |||||||| |||| |||||         u
cggu uu gucuC   CCUAAGAC ACAA CGGUG         u
    a  c     AUA        -    G     Aguaaaauu 


Annotation confidence High
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Genome context
chr6: 133892655-133892744 [+]
Clustered miRNAs
15 other miRNAs are < 10 kb from rno-mir-541
Name Accession Chromosome Start End Strand Confidence




Database links

Mature rno-miR-541-5p

Accession MIMAT0003177
Description Rattus norvegicus rno-miR-541-5p mature miRNA
Sequence 14 - AAGGGAUUCUGAUGUUGGUCACACU - 38
Evidence experimental
cloned [2], SOLiD [3]

Mature rno-miR-541-3p

Accession MIMAT0017213
Description Rattus norvegicus rno-miR-541-3p mature miRNA
Sequence 56 - AGUGGCGAACACAGAAUCCAUAC - 78
Evidence experimental
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