miRBase entry: ssc-mir-542

Stem-loop ssc-mir-542


Accession
MI0013138
Description
Sus scrofa ssc-mir-542 precursor miRNA
Gene family
MIPF0000185; mir-542

Literature search
6 open access papers mention ssc-mir-542
(6 sentences)

Sequence

1211 reads, 388 reads per million, 11 experiments
ccucagacgucUCGGGGAUCAUCAUGUCACGAgagaccacugugcacuUGUGACAGAUUGAUAACUGAAAggucugggag
.(((((((.(.((((..((((...(((((((((.(((....)).).)))))))))...))))..)))).).)))))))..

Structure
-c       g c    GG    UCA         a -  c 
  cucagac u UCGG  AUCA   UGUCACGAg g ac a
  ||||||| | ||||  ||||   ||||||||| | ||  
  gggucug A AGUC  UAGU   ACAGUGUuc c ug c
ga       g A    AA    UAG         a g  u 


Annotation confidence High
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Genome context
chrUScaf3177: 3348-3427 [+]
Clustered miRNAs
3 other miRNAs are < 10 kb from ssc-mir-542
Name Accession Chromosome Start End Strand Confidence




Database links

Mature ssc-miR-542-5p

Accession MIMAT0013924
Description Sus scrofa ssc-miR-542-5p mature miRNA
Sequence 12 - UCGGGGAUCAUCAUGUCACGA - 32
Evidence experimental
Illumina [1,3]

Mature ssc-miR-542-3p

Accession MIMAT0013925
Description Sus scrofa ssc-miR-542-3p mature miRNA
Sequence 49 - UGUGACAGAUUGAUAACUGAAA - 70
Evidence experimental
Illumina [1,3], cloned [2]

References

  1. PubMed ID: 19917043
    MicroRNA identity and abundance in porcine skeletal muscles determined by deep sequencing
    "Nielsen M, Hansen JH, Hedegaard J, Nielsen RO, Panitz F, Bendixen C, Thomsen B"
    "Anim Genet (2010) 41:159-168

  2. PubMed ID: 20180025
    Cloning and characterization of microRNAs from porcine skeletal muscle and adipose tissue
    "Cho IS, Kim J, Seo HY, Lim DH, Hong JS, Park YH, Park DC, Hong KC, Whang KY, Lee YS"
    "Mol Biol Rep (2010) 37:3567-3574

  3. PubMed ID: 21312241
    MicroRNA identity and abundance in developing swine adipose tissue as determined by Solexa sequencing
    "Li G, Li Y, Li X, Ning X, Li M, Yang G"
    "J Cell Biochem (2011) 112:1318-1328