Stem-loop rno-mir-539

Accession

MI0003526

Description

Rattus norvegicus rno-mir-539 precursor miRNA

Gene family

MIPF0000018; mir-154

Literature search

5 open access papers mention rno-mir-539
(23 sentences)

Sequence

14141 reads, 46 reads per million, 275 experiments

auacuugaGGAGAAAUUAUCCUUGGUGUGUuugcucuuuuggaugaauCAUACAAGGGUAAUUUCUUUUCgaguau
((((((((((((((((((((((((.((((.((..(((...)))..)).))))))))))))))))))))))))))))

Structure

                        G    U  gc   u 
auacuugaGGAGAAAUUAUCCUUG UGUG uu  ucu  
|||||||||||||||||||||||| |||| ||  ||| u
uaugagCUUUUCUUUAAUGGGAAC AUAC aa  agg  
                        -    u  gu   u 

Annotation confidence High

Genome context

chr6: 133877832-133877907 [+]

Clustered miRNAs

17 other miRNAs are < 10 kb from rno-mir-539

Mature rno-miR-539-5p

• Accession: MIMAT0003176
• Description: Rattus norvegicus rno-miR-539-5p mature miRNA
• Sequence: 9 - GGAGAAAUUAUCCUUGGUGUGU - 30
• Evidence: experimental ; cloned [2], SOLiD [3]

Mature rno-miR-539-3p

• Accession: MIMAT0017212
• Description: Rattus norvegicus rno-miR-539-3p mature miRNA
• Sequence: 49 - CAUACAAGGGUAAUUUCUUUUC - 70
• 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