Stem-loop sequence rno-mir-96

Accession

MI0000881 (change log)

Description

Rattus norvegicus miR-96 stem-loop

Gene family

MIPF0000072; mir-96

Literature search

25 open access papers mention rno-mir-96
(125 sentences)

Stem-loop

   c     cca       gg  g  u        a      uu      ---   uc 
5'  cagua   ucugcuu  cc au uuggcacu gcacau  uugcuu   gug  u
    |||||   |||||||  || || |||||||| ||||||  ||||||   |||   
3'  gucgu   gggcgaa  gg ua aaccguga cgugua  aacgag   cgc  c
   c     --c       aa  g  u        -      cu      ucu   cu 

Deep sequencing

23365 reads, 6.97 reads per million, 402 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr4: 57463366-57463471 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-96

• rno-mir-3553: chr4: 57463572-57463677 [+]
• rno-mir-183: chr4: 57463569-57463678 [-]
• rno-mir-96: chr4: 57463366-57463471 [-]
• rno-mir-182: chr4: 57459773-57459834 [-]

Database links

• EntrezGene:Mir96
• miRBase Tracker:MI0000881

Mature sequence rno-miR-96-5p

• Accession: MIMAT0000818
• Previous IDs: rno-miR-96
• Sequence: 24 - uuuggcacuagcacauuuuugcu - 46
• Deep sequencing: 23316 reads, 402 experiments
• Evidence: experimental; cloned [1-2], SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-96-5p
  • miRDB:rno-miR-96-5p
  • microrna.org:rno-miR-96-5p

Mature sequence rno-miR-96-3p

• Accession: MIMAT0017110
• Previous IDs: rno-miR-96*
• Sequence: 66 - caaucaugugcagugccaauau - 87
• Deep sequencing: 30 reads, 26 experiments
• Evidence: experimental; SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-96-3p
  • miRDB:rno-miR-96-3p

References

1. 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).
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: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).