Stem-loop sequence mmu-mir-875

Accession

MI0005551 (change log)

Symbol

MGI:Mir875

Description

Mus musculus miR-875 stem-loop

Gene family

MIPF0000424; mir-875

Literature search

4 open access papers mention mmu-mir-875
(4 sentences)

Stem-loop

   ---  u    u  u   -       u  a       uuca 
5'    uc gugg ac aua ccucagu uu ucaggug    u
      || |||| || ||| ||||||| || |||||||    u
3'    ag cacu ug uau ggaguca aa aguccac    a
   acg  u    u  -   c       u  a       uaaa 

Deep sequencing

307 reads, 0 reads per million, 23 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): chr15: 35660970-35661047 [-]
• Overlapping transcripts:

  antisense

  ENSMUST00000048646 ; Vps13b-201; intron 30

Clustered miRNAs

< 10kb from mmu-mir-875

• mmu-mir-875: chr15: 35660970-35661047 [-]
• mmu-mir-599: chr15: 35660831-35660918 [-]

Database links

• EntrezGene:Mir875
• MGI:Mir875
• RNAcentral:URS000075B56A_10090
• miRBase Tracker:MI0005551

Mature sequence mmu-miR-875-5p

• Accession: MIMAT0004937
• Sequence: 11 - uauaccucaguuuuaucaggug - 32
• Deep sequencing: 232 reads, 22 experiments
• Evidence: experimental; RAKE [1], Illumina [3]
• Database links:
  • RNAcentral:URS0000312ECD_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-875-5p
  • miRDB:mmu-miR-875-5p
  • microrna.org:mmu-miR-875-5p

Mature sequence mmu-miR-875-3p

• Accession: MIMAT0004938
• Sequence: 46 - ccugaaaauacugaggcuaug - 66
• Deep sequencing: 75 reads, 3 experiments
• Evidence: experimental; RAKE [1], Illumina [3]
• Database links:
  • RNAcentral:URS00000AC268_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-875-3p
  • miRDB:mmu-miR-875-3p
  • microrna.org:mmu-miR-875-3p

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: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).