Stem-loop sequence mmu-mir-485

Accession

MI0003492

Symbol

MGI:Mir485

Description

Mus musculus miR-485 stem-loop

Gene family

MIPF0000201; mir-485

Stem-loop

   u         cu       -    a    auuc 
acu ggagagagg  ggccgug auga uucg    a
||| |||||||||  ||||||| |||| ||||    u
uga cuucucucc  ucggcac uacu gagc    c
   u         uc       a    -    aaau 

Deep sequencing

36932 reads, 68 experiments

Comments

miR-485-3p was predicted by Sewer et al [1], and its expression later verified experimentally by Mineno et al using MPSS technology [2]. The MPSS protocol used provides 22nt sequences, but the true extents of the mature miRNA are not reliably obtained. Landgraf et al. show that the 5' product is the predominant one [3].

Genome context

• Coordinates (GRCm38): chr12: 109734902-109734974 [+]
• Overlapping transcripts:

  sense

  ENSMUST00000093620 ; Mir485-201; exon 1

Clustered miRNAs

< 10kb from mmu-mir-485

• mmu-mir-381: chr12: 109726822-109726896 [+]
• mmu-mir-487b: chr12: 109727333-109727414 [+]
• mmu-mir-539: chr12: 109728129-109728202 [+]
• mmu-mir-544: chr12: 109729325-109729402 [+]
• mmu-mir-382: chr12: 109733771-109733846 [+]
• mmu-mir-134: chr12: 109734139-109734209 [+]
• mmu-mir-668: chr12: 109734732-109734797 [+]
• mmu-mir-485: chr12: 109734902-109734974 [+]
• mmu-mir-453: chr12: 109735619-109735700 [+]
• mmu-mir-154: chr12: 109738433-109738498 [+]
• mmu-mir-496a: chr12: 109739119-109739197 [+]
• mmu-mir-377: chr12: 109740510-109740577 [+]
• mmu-mir-541: chr12: 109742409-109742498 [+]
• mmu-mir-409: chr12: 109743158-109743236 [+]
• mmu-mir-412: chr12: 109743289-109743368 [+]
• mmu-mir-369: chr12: 109743418-109743496 [+]
• mmu-mir-410: chr12: 109743715-109743795 [+]

Database links

• ENTREZGENE: 723875;Mir485
• MGI: 3619422;Mir485

Mature sequence mmu-miR-485-5p

• Accession: MIMAT0003128
• Previous IDs: mmu-miR-485-5p;mmu-miR-485
• Sequence: 9 - agaggcuggccgugaugaauuc - 30
• Deep sequencing: 26511 reads, 59 experiments
• Evidence: experimental; cloned [1,3], MPSS [2], Solexa [4-5]
• Predicted targets:
  • DIANA-MICROT:mmu-miR-485-5p
  • MICRORNA.ORG:mmu-miR-485-5p
  • MIRDB:mmu-miR-485-5p
  • RNA22-MMU:mmu-miR-485-5p
  • TARGETSCAN-VERT:mmu-miR-485

Mature sequence mmu-miR-485-3p

• Accession: MIMAT0003129
• Previous IDs: mmu-miR-485-3p;mmu-miR-485*
• Sequence: 45 - agucauacacggcucuccucuc - 66
• Deep sequencing: 10389 reads, 60 experiments
• Evidence: experimental; MPSS [2], Solexa [4-5]
• Predicted targets:
  • DIANA-MICROT:mmu-miR-485-3p
  • MICRORNA.ORG:mmu-miR-485-3p
  • MIRDB:mmu-miR-485-3p
  • RNA22-MMU:mmu-miR-485-3p

References

1. PMID: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. 6:267(2005).
2. 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).
3. 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).
4. 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).
5. 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).