Stem-loop sequence rno-mir-99a

Accession

MI0000883 (change log)

Description

Rattus norvegicus miR-99a stem-loop

Gene family

MIPF0000033; mir-10

Literature search

22 open access papers mention rno-mir-99a
(55 sentences)

Stem-loop

   cc     g    a         uc   u      g  aag 
5'   cauug caua acccguaga  cga cuugug ug   u
     ||||| |||| |||||||||  ||| |||||| ||    
3'   gugac gugu uggguaucu  gcu gaacac gc   g
   gu     g    c         uu   c      -  cag 

Deep sequencing

1977401 reads, 1.64e+03 reads per million, 497 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr11: 16052153-16052233 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-99a

• rno-mir-99a: chr11: 16052153-16052233 [+]
• rno-let-7c-1: chr11: 16052873-16052966 [+]

Database links

• EntrezGene:Mir99a
• miRBase Tracker:MI0000883

Mature sequence rno-miR-99a-5p

• Accession: MIMAT0000820
• Previous IDs: rno-miR-99a
• Sequence: 13 - aacccguagauccgaucuugug - 34
• Deep sequencing: 1936854 reads, 497 experiments
• Evidence: experimental; cloned [1-5], SOLiD [6]
• Predicted targets:
  • TargetScanVert:rno-miR-99a-5p
  • miRDB:rno-miR-99a-5p
  • microrna.org:rno-miR-99a-5p

Mature sequence rno-miR-99a-3p

• Accession: MIMAT0004724
• Previous IDs: rno-miR-99a*
• Sequence: 50 - caagcucguuucuaugggucug - 71
• Deep sequencing: 40542 reads, 466 experiments
• Evidence: experimental; cloned [4], SOLiD [6]
• Predicted targets:
  • TargetScanVert:rno-miR-99a-3p
  • miRDB:rno-miR-99a-3p
  • microrna.org:rno-miR-99a-3p

References

1. PMID:14691248 "Identification of many microRNAs that copurify with polyribosomes in mammalian neurons" Kim J, Krichevsky A, Grad Y, Hayes GD, Kosik KS, Church GM, Ruvkun G Proc Natl Acad Sci U S A. 101:360-365(2004).
2. PMID:15345052 "Microarray analysis of microRNA expression in the developing mammalian brain" Miska EA, Alvarez-Saavedra E, Townsend M, Yoshii A, Sestan N, Rakic P, Constantine-Paton M, Horvitz HR Genome Biol. 5:R68(2004).
3. PMID:16766679 "Identification and characterization of two novel classes of small RNAs in the mouse germline: retrotransposon-derived siRNAs in oocytes and germline small RNAs in testes" Watanabe T, Takeda A, Tsukiyama T, Mise K, Okuno T, Sasaki H, Minami N, Imai H Genes Dev. 20:1732-1743(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:17805466 "Cloning and identification of novel microRNAs from rat hippocampus" He X, Zhang Q, Liu Y, Pan X Acta Biochim Biophys Sin (Shanghai). 39:708-714(2007).
6. PMID:20403161 "Small RNA expression and strain specificity in the rat" Linsen SE, de Wit E, de Bruijn E, Cuppen E BMC Genomics. 11:249(2010).