Stem-loop sequence mmu-mir-1249

Accession

MI0004132 (change log)

Symbol

MGI:Mir1249

Description

Mus musculus miR-1249 stem-loop

Gene family

MIPF0000667; mir-1249

Literature search

8 open access papers mention mmu-mir-1249
(11 sentences)

Stem-loop

      -uucuu      gu  -         a     u    caa     cua 
5' cga      guuugc  gg ggaggaggg gggga gggc   guucc   u
   |||      ||||||  || ||||||||| ||||| ||||   |||||    
3' gcu      caagcg  cc cuucuuccc ccccu cccg   caagg   g
      cauccu      gu  a         -     u    ---     ucc 

Deep sequencing

8331 reads, 40.4 reads per million, 99 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Comments

This sequence was identified as a miRNA candidate by Berezikov et al [1], and confirmed later in mouse ES cells [2].

Genome context

• Coordinates (GRCm38; GCA_000001635.2): chr15: 84951526-84951623 [-]
• Overlapping transcripts:

  sense

  OTTMUST00000069764 ; RP23-180L12.1-002; exon 6

  OTTMUST00000069763 ; RP23-180L12.1-001; intron 7

  ENSMUST00000124308 ; 5031439G07Rik-002; exon 6

  ENSMUST00000165743 ; 5031439G07Rik-201; intron 7

  ENSMUST00000047144 ; 5031439G07Rik-001; intron 7

Database links

• EntrezGene:Mir1249
• MGI:Mir1249
• RNAcentral:URS000075E92B_10090
• miRBase Tracker:MI0004132

Mature sequence mmu-miR-1249-5p

• Accession: MIMAT0014804
• Previous IDs: mmu-miR-1249*
• Sequence: 21 - aggagggaggggaugggccaaguuc - 45
• Deep sequencing: 225 reads, 43 experiments
• Evidence: experimental; Illumina [3]
• Database links:
  • RNAcentral:URS00001342DF_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-1249-5p
  • miRDB:mmu-miR-1249-5p

Mature sequence mmu-miR-1249-3p

• Accession: MIMAT0010560
• Previous IDs: mmu-miR-1249
• Sequence: 58 - acgcccuucccccccuucuuca - 79
• Deep sequencing: 8098 reads, 94 experiments
• Evidence: experimental; RAKE [1], 454 [2], Illumina [3]
• Database links:
  • RNAcentral:URS000060AABB_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-1249-3p
  • miRDB:mmu-miR-1249-3p

References

1. PMID:16954537 "Many novel mammalian microRNA candidates identified by extensive cloning and RAKE analysis" Berezikov E, van Tetering G, Verheul M, van de Belt J, van Laake L, Vos J, Verloop R, van de Wetering M, Guryev V, Takada S, van Zonneveld AJ, Mano H, Plasterk R, Cuppen E Genome Res. 16:1289-1298(2006).
2. PMID:17989215 "RNA sequence analysis defines Dicer's role in mouse embryonic stem cells" Calabrese JM, Seila AC, Yeo GW, Sharp PA Proc Natl Acad Sci U S A. 104:18097-18102(2007).
3. 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).