Stem-loop sequence rno-mir-218a-1

Accession

MI0000958 (change log)

Previous IDs

rno-mir-218-1

Description

Rattus norvegicus miR-218a-1 stem-loop

Gene family

MIPF0000026; mir-218

Literature search

14 open access papers mention rno-mir-218a-1
(43 sentences)

Stem-loop

   -   au  c  a   a   u      u         cu        gc    gag 
5'  gug  aa gu gcg gau uucugu gugcuugau  aaccaugu  uugc   g
    |||  || || ||| ||| |||||| |||||||||  ||||||||  ||||   u
3'  cau  uu cg cgc cug aaggua cacgaacug  uugguaca  aaug   a
   a   cu  -  a   a   c      c         cc        -a    agu 

Deep sequencing

364212 reads, 218 reads per million, 482 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr14: 66923083-66923192 [-]
• Overlapping transcripts:

  sense

  ENSRNOT00000005477 ; Slit2-201; intron 15

  antisense

  ENSRNOT00000053609 ; Mir3565-201; exon 1

Clustered miRNAs

< 10kb from rno-mir-218a-1

• rno-mir-218b: chr14: 66923083-66923196 [+]
• rno-mir-218a-1: chr14: 66923083-66923192 [-]

Database links

• EntrezGene:Mir218-1
• miRBase Tracker:MI0000958

Mature sequence rno-miR-218a-5p

• Accession: MIMAT0000888
• Previous IDs: rno-miR-218;rno-miR-218a
• Sequence: 25 - uugugcuugaucuaaccaugu - 45
• Deep sequencing: 722210 reads, 480 experiments
• Evidence: experimental; cloned [1-3], Northern [1-2], SOLiD [4]
• Predicted targets:
  • TargetScanVert:rno-miR-218a-5p
  • miRDB:rno-miR-218a-5p
  • microrna.org:rno-miR-218a-5p

Mature sequence rno-miR-218a-1-3p

• Accession: MIMAT0017162
• Previous IDs: rno-miR-218-1*;rno-miR-218a-1*
• Sequence: 64 - aaacaugguuccgucaagcac - 84
• Deep sequencing: 3212 reads, 266 experiments
• Evidence: experimental; SOLiD [4]
• Predicted targets:
  • TargetScanVert:rno-miR-218a-1-3p
  • miRDB:rno-miR-218a-1-3p

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).