Stem-loop sequence rno-mir-100

Accession

MI0000885 (change log)

Description

Rattus norvegicus miR-100 stem-loop

Gene family

MIPF0000033; mir-10

Literature search

22 open access papers mention rno-mir-100
(145 sentences)

Stem-loop

       -uu c    a   cg    uc   a      c  ac 
5' ccug   g caca acc  uaga  cga cuugug ug  c
   ||||   | |||| |||  ||||  ||| |||||| ||   
3' ggau   c gugu ugg  aucu  guu gaacac ac  a
       ugu u    a   au    gu   c      -  gu 

Deep sequencing

1935129 reads, 1.64e+03 reads per million, 495 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr8: 45746948-45747027 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-100

• rno-mir-100: chr8: 45746948-45747027 [+]
• rno-mir-3596a: chr8: 45753254-45753367 [-]
• rno-let-7a-2: chr8: 45753264-45753359 [+]

Database links

• EntrezGene:Mir100
• miRBase Tracker:MI0000885

Mature sequence rno-miR-100-5p

• Accession: MIMAT0000822
• Previous IDs: rno-miR-100
• Sequence: 13 - aacccguagauccgaacuugug - 34
• Deep sequencing: 1933388 reads, 495 experiments
• Evidence: experimental; cloned [1-2], Northern [1], SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-100-5p
  • miRDB:rno-miR-100-5p
  • microrna.org:rno-miR-100-5p

Mature sequence rno-miR-100-3p

• Accession: MIMAT0017112
• Previous IDs: rno-miR-100*
• Sequence: 48 - caagcuugugucuauaggu - 66
• Deep sequencing: 1741 reads, 301 experiments
• Evidence: experimental; SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-100-3p
  • miRDB:rno-miR-100-3p

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: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).