Stem-loop sequence rno-mir-16

Accession

MI0000844 (change log)

Description

Rattus norvegicus miR-16 stem-loop

Gene family

MIPF0000006; mir-15

Literature search

67 open access papers mention rno-mir-16
(658 sentences)

Stem-loop

   caua     uc    cu         ua        c  ag   aau 
5'     cuugu  cgcu  agcagcacg  aauauugg gu  uga   a
       |||||  ||||  |||||||||  |||||||| ||  |||    
3'     ggaca  guga  ucgucgugu  uuauaacc ca  auu   a
   auag     gu    uu         ua        a  -a   aua 

Deep sequencing

6841690 reads, 5.36e+03 reads per million, 513 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr2: 165606072-165606166 [+]
• Overlapping transcripts:

  sense

  ENSRNOT00000013931 ; Smc4-201; intron 5

Clustered miRNAs

< 10kb from rno-mir-16

• rno-mir-15b: chr2: 165605923-165606020 [+]
• rno-mir-16: chr2: 165606072-165606166 [+]

Database links

• EntrezGene:Mir16
• miRBase Tracker:MI0000844

Mature sequence rno-miR-16-5p

• Accession: MIMAT0000785
• Previous IDs: rno-miR-16
• Sequence: 17 - uagcagcacguaaauauuggcg - 38
• Deep sequencing: 6840273 reads, 513 experiments
• Evidence: experimental; cloned [1-4], Northern [1,3], SOLiD [5]
• Predicted targets:
  • TargetScanVert:rno-miR-16-5p
  • miRDB:rno-miR-16-5p
  • microrna.org:rno-miR-16-5p

Mature sequence rno-miR-16-3p

• Accession: MIMAT0017094
• Previous IDs: rno-miR-16*
• Sequence: 59 - accaauauuauugugcugcuu - 79
• Deep sequencing: 1416 reads, 358 experiments
• Evidence: experimental; SOLiD [5]
• Predicted targets:
  • TargetScanVert:rno-miR-16-3p
  • miRDB:rno-miR-16-3p

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: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).