Stem-loop sequence mmu-mir-488

Accession

MI0004633 (change log)

Symbol

MGI:Mir488

Description

Mus musculus miR-488 stem-loop

Gene family

MIPF0000318; mir-488

Literature search

11 open access papers mention mmu-mir-488
(57 sentences)

Stem-loop

         u    g     a  c   cu  c   u      a  c        guu 
5' uucggg gaga ugaga uc ucu  cc aga aauagc cu ucaaacaa   u
   |||||| |||| ||||| || |||  || ||| |||||| || ||||||||   c
3' aggucu cuuu acucu ag aga  gg ucu uugucg ga aguuuguu   c
         u    a     c  a   cu  u   -      -  a        gua 

Deep sequencing

12009 reads, 29.2 reads per million, 48 experiments

Confidence

Annotation confidence: high

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Comments

The predominant miRNA cloned by Langraf et al. has a 3' terminal U residue, which is incompatible with the genome sequence [2].

Genome context

• Coordinates (GRCm38; GCA_000001635.2): chr1: 158505625-158505733 [+]
• Overlapping transcripts:

  sense

  ENSMUST00000046110 ; Astn1-201; intron 5

  ENSMUST00000170718 ; Astn1-202; intron 5

Database links

• EntrezGene:Mir488
• MGI:Mir488
• RNAcentral:URS000075CF07_10090
• miRBase Tracker:MI0004633

Mature sequence mmu-miR-488-5p

• Accession: MIMAT0003449
• Previous IDs: mmu-miR-488;mmu-miR-488*
• Sequence: 27 - cccagauaauagcacucucaa - 47
• Deep sequencing: 288 reads, 21 experiments
• Evidence: experimental; Illumina [3-4]
• Database links:
  • RNAcentral:URS000050BE38_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-488-5p
  • miRDB:mmu-miR-488-5p
  • microrna.org:mmu-miR-488-5p

Mature sequence mmu-miR-488-3p

• Accession: MIMAT0003450
• Previous IDs: mmu-miR-488*;mmu-miR-488
• Sequence: 65 - uugaaaggcuguuucuugguc - 85
• Deep sequencing: 11715 reads, 45 experiments
• Evidence: experimental; MPSS [1], cloned [2], Illumina [3-4]
• Database links:
  • RNAcentral:URS00002D77C3_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-488-3p
  • miRDB:mmu-miR-488-3p
  • microrna.org:mmu-miR-488-3p

References

1. PMID:16582102 "The expression profile of microRNAs in mouse embryos" Mineno J, Okamoto S, Ando T, Sato M, Chono H, Izu H, Takayama M, Asada K, Mirochnitchenko O, Inouye M, Kato I Nucleic Acids Res. 34:1765-1771(2006).
2. PMID: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. 129:1401-1414(2007).
3. PMID: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. 16:463-471(2010).
4. PMID: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. 24:992-1009(2010).