Stem-loop sequence mmu-mir-544

Accession

MI0005555 (change log)

Symbol

MGI:Mir544

Description

Mus musculus miR-544 stem-loop

Gene family

MIPF0000436; mir-544

Literature search

5 open access papers mention mmu-mir-544
(103 sentences)

Stem-loop

   ---   cua    u           -         gauug 
5'    cac   ggga cuuguuaaaaa gcagagucu     a
      |||   |||| ||||||||||| |||||||||     g
3'    gug   cucu gaacgauuuuu cgucuuaga     g
   gua   -aa    c           a         accgg 

Deep sequencing

2671 reads, 6.52 reads per million, 46 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. using RAKE and MPSS techniques [1]. Expression was independently shown in human and rat [2].

Genome context

• Coordinates (GRCm38; GCA_000001635.2): chr12: 109729325-109729402 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from mmu-mir-544

• mmu-mir-667: chr12: 109720006-109720097 [+]
• mmu-mir-376c: chr12: 109722718-109722803 [+]
• mmu-mir-654: chr12: 109723218-109723301 [+]
• mmu-mir-376b: chr12: 109723458-109723539 [+]
• mmu-mir-376a: chr12: 109723781-109723848 [+]
• mmu-mir-300: chr12: 109724313-109724391 [+]
• 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 [+]

Database links

• EntrezGene:Mir544
• MGI:Mir544
• RNAcentral:URS000075CB9C_10090
• miRBase Tracker:MI0005555

Mature sequence mmu-miR-544-5p

• Accession: MIMAT0017282
• Sequence: 11 - ucuuguuaaaaagcagagucu - 31
• Deep sequencing: 2209 reads, 38 experiments
• Evidence: experimental; Illumina [4]
• Database links:
  • RNAcentral:URS00002C259F_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-544-5p
  • miRDB:mmu-miR-544-5p

Mature sequence mmu-miR-544-3p

• Accession: MIMAT0004941
• Previous IDs: mmu-miR-544
• Sequence: 47 - auucugcauuuuuagcaagcuc - 68
• Deep sequencing: 455 reads, 36 experiments
• Evidence: experimental; RAKE [1], Illumina [3-4]
• Database links:
  • RNAcentral:URS000061EC17_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-544-3p
  • miRDB:mmu-miR-544-3p
  • microrna.org:mmu-miR-544-3p

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: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).