Stem-loop sequence mmu-mir-653

Accession

MI0005557 (change log)

Symbol

MGI:Mir653

Description

Mus musculus miR-653 stem-loop

Gene family

MIPF0000435; mir-653

Literature search

2 open access papers mention mmu-mir-653
(2 sentences)

Stem-loop

   --       u              u     c     caa   c 
5'   cauucuu caguguugaaacaa cucua ugaac   gcu c
     ||||||| |||||||||||||| ||||| |||||   |||  
3'   gugagga guuaugacuuuguu gaggu acuug   cga a
   uc       c              u     c     -ag   a 

Deep sequencing

750 reads, 0 reads per million, 34 experiments

Confidence

Annotation confidence: high

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Comments

This sequence was identified as a miRNA candidate by Berezikov et al. using RAKE and MPSS techniques [1]. Expression was independently shown in human and rat [2].

Genome context

• Coordinates (GRCm38; GCA_000001635.2): chr6: 3721301-3721385 [-]
• Overlapping transcripts:

  sense

  OTTMUST00000091195 ; Calcr-004; intron 1

  OTTMUST00000091196 ; Calcr-003; intron 4

  OTTMUST00000091182 ; Calcr-005; intron 4

  OTTMUST00000091197 ; Calcr-001; intron 4

  ENSMUST00000171396 ; Calcr-004; intron 1

  ENSMUST00000170266 ; Calcr-202; intron 2

  ENSMUST00000168592 ; Calcr-201; intron 2

  ENSMUST00000171613 ; Calcr-003; intron 4

  ENSMUST00000115622 ; Calcr-005; intron 4

  ENSMUST00000075644 ; Calcr-001; intron 4

Clustered miRNAs

< 10kb from mmu-mir-653

• mmu-mir-489: chr6: 3721897-3722003 [-]
• mmu-mir-653: chr6: 3721301-3721385 [-]

Database links

• EntrezGene:Mir653
• MGI:Mir653
• RNAcentral:URS000075C4FC_10090
• miRBase Tracker:MI0005557

Mature sequence mmu-miR-653-5p

• Accession: MIMAT0004943
• Previous IDs: mmu-miR-653
• Sequence: 11 - guguugaaacaaucucuacug - 31
• Deep sequencing: 698 reads, 33 experiments
• Evidence: experimental; RAKE [1], 454 [3], Illumina [4]
• Database links:
  • RNAcentral:URS000061E50F_10090
• Predicted targets:
  • miRDB:mmu-miR-653-5p
  • microrna.org:mmu-miR-653-5p

Mature sequence mmu-miR-653-3p

• Accession: MIMAT0017284
• Previous IDs: mmu-miR-653*
• Sequence: 51 - uucacuggaguuuguuucagu - 71
• Deep sequencing: 50 reads, 16 experiments
• Evidence: experimental; Illumina [4]
• Database links:
  • RNAcentral:URS00004A6A51_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-653-3p
  • miRDB:mmu-miR-653-3p

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: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: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).
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).