Stem-loop sequence rno-mir-98

Accession

MI0000882 (change log)

Description

Rattus norvegicus miR-98 stem-loop

Gene family

MIPF0000002; let-7

Literature search

35 open access papers mention rno-mir-98
(254 sentences)

Stem-loop

   c   -      ug   u                 u    ---------      aggg 
5'  ugc acaugc  ggg gagguaguaaguuguau guug         uggggu    a
    ||| ||||||  ||| ||||||||||||||||| ||||         ||||||    u
3'  acg ugugug  ccc uuucaucauucaacaua caau         accccg    u
   u   g      gu   -                 u    agaagaaua      gauu 

Deep sequencing

8413287 reads, 7.51e+03 reads per million, 514 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chrX: 21583875-21583982 [+]
• Overlapping transcripts:

  sense

  ENSRNOT00000003882 ; Huwe1-201; intron 73

Clustered miRNAs

< 10kb from rno-mir-98

• rno-let-7f-2: chrX: 21583272-21583354 [+]
• rno-mir-98: chrX: 21583875-21583982 [+]

Database links

• EntrezGene:Mir98
• miRBase Tracker:MI0000882

Mature sequence rno-miR-98-5p

• Accession: MIMAT0000819
• Previous IDs: rno-miR-98
• Sequence: 16 - ugagguaguaaguuguauuguu - 37
• Deep sequencing: 8395697 reads, 514 experiments
• Evidence: experimental; cloned [1-3], SOLiD [4]
• Predicted targets:
  • TargetScanVert:rno-miR-98-5p
  • miRDB:rno-miR-98-5p
  • microrna.org:rno-miR-98-5p

Mature sequence rno-miR-98-3p

• Accession: MIMAT0017111
• Previous IDs: rno-miR-98*
• Sequence: 74 - cuauacaacuuacuacuuucc - 94
• Deep sequencing: 17587 reads, 474 experiments
• Evidence: experimental; SOLiD [4]
• Predicted targets:
  • TargetScanVert:rno-miR-98-3p
  • miRDB:rno-miR-98-3p

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: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).
3. 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).
4. 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).