Stem-loop sequence mmu-mir-543

Accession

MI0003519 (change log)

Symbol

MGI:Mir543

Description

Mus musculus miR-543 stem-loop

Gene family

MIPF0000110; mir-329

Literature search

15 open access papers mention mmu-mir-543
(164 sentences)

Stem-loop

   u   u  u       u  -     --      -    uu 
5'  gcu aa gagaagu gc ccgcg  uguuuu ucgc  u
    ||| || ||||||| || |||||  |||||| ||||  a
3'  cga uu uucuuca cg ggcgc  acaaag agug  u
   a   c  u       -  u     uu      c    ua 

Deep sequencing

24755 reads, 150 reads per million, 82 experiments

Confidence

Annotation confidence: not enough data

Feedback: Do you believe this miRNA is real?

Comments

The mature sequence shown here represents the most commonly cloned form from large-scale cloning studies [4].

Genome context

• Coordinates (GRCm38; GCA_000001635.2): chr12: 109717258-109717333 [+]
• Overlapping transcripts:

  sense

  ENSMUST00000102286 ; Mir543-201; exon 1

Clustered miRNAs

< 10kb from mmu-mir-543

• mmu-mir-379: chr12: 109709060-109709125 [+]
• mmu-mir-411: chr12: 109710175-109710256 [+]
• mmu-mir-299a: chr12: 109710638-109710700 [+]
• mmu-mir-299b: chr12: 109710645-109710693 [-]
• mmu-mir-380: chr12: 109711803-109711863 [+]
• mmu-mir-1197: chr12: 109712317-109712436 [+]
• mmu-mir-323: chr12: 109712508-109712593 [+]
• mmu-mir-758: chr12: 109712810-109712890 [+]
• mmu-mir-329: chr12: 109713481-109713577 [+]
• mmu-mir-494: chr12: 109715318-109715402 [+]
• mmu-mir-679: chr12: 109715577-109715650 [+]
• mmu-mir-1193: chr12: 109715671-109715791 [+]
• mmu-mir-666: chr12: 109717085-109717183 [+]
• mmu-mir-543: chr12: 109717258-109717333 [+]
• mmu-mir-495: chr12: 109718754-109718816 [+]
• 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 [+]

Database links

• EntrezGene:Mir543
• MGI:Mir543
• RNAcentral:URS0000759C65_10090
• miRBase Tracker:MI0003519

Mature sequence mmu-miR-543-5p

• Accession: MIMAT0017207
• Previous IDs: mmu-miR-543*
• Sequence: 12 - aaguugcccgcguguuuuucg - 32
• Deep sequencing: 1649 reads, 51 experiments
• Evidence: experimental; 454 [6], Illumina [7]
• Database links:
  • RNAcentral:URS00000D1276_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-543-5p
  • miRDB:mmu-miR-543-5p

Mature sequence mmu-miR-543-3p

• Accession: MIMAT0003168
• Previous IDs: mmu-miR-543
• Sequence: 47 - aaacauucgcggugcacuucuu - 68
• Deep sequencing: 23103 reads, 82 experiments
• Evidence: experimental; cloned [1,4], MPSS [2], miRAP-cloned [3], Illumina [5,7]
• Database links:
  • RNAcentral:URS000019F055_10090
• Predicted targets:
  • TargetScanVert:mmu-miR-543-3p
  • miRDB:mmu-miR-543-3p
  • microrna.org:mmu-miR-543-3p

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:16973894 "Mouse microRNA profiles determined with a new and sensitive cloning method" Takada S, Berezikov E, Yamashita Y, Lagos-Quintana M, Kloosterman WP, Enomoto M, Hatanaka H, Fujiwara S, Watanabe H, Soda M, Choi YL, Plasterk RH, Cuppen E, Mano H Nucleic Acids Res. 34:e115(2006).
4. 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).
5. 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).
6. PMID:20668074 "Identification and analysis of expression of novel microRNAs of murine gammaherpesvirus 68" Zhu JY, Strehle M, Frohn A, Kremmer E, Hofig KP, Meister G, Adler H J Virol. 84:10266-10275(2010).
7. 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).