Stem-loop sequence rno-mir-200a

Accession

MI0000943 (change log)

Description

Rattus norvegicus miR-200a stem-loop

Gene family

MIPF0000019; mir-8

Literature search

67 open access papers mention rno-mir-200a
(493 sentences)

Stem-loop

   cu   - c   g        -             c    uu  uu 
5'   ggg c ucu ugggcauc uuaccggacagug ugga  uc  g
     ||| | ||| |||||||| ||||||||||||| ||||  ||  g
3'   ccc g gga acuuguag aauggucugucac aucu  ag  c
   -a   a u   a        c             a    -c  uu 

Deep sequencing

1452778 reads, 1.64e+03 reads per million, 485 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr5: 173489366-173489454 [-]
• Overlapping transcripts:

  antisense

  ENSRNOT00000053773 ; Mir3548-201; exon 1

Clustered miRNAs

< 10kb from rno-mir-200a

• rno-mir-200b: chr5: 173490144-173490238 [-]
• rno-mir-200a: chr5: 173489366-173489454 [-]
• rno-mir-3548: chr5: 173489353-173489472 [+]
• rno-mir-429: chr5: 173488331-173488415 [-]

Database links

• EntrezGene:Mir200a
• miRBase Tracker:MI0000943

Mature sequence rno-miR-200a-5p

• Accession: MIMAT0017151
• Previous IDs: rno-miR-200a*
• Sequence: 16 - caucuuaccggacagugcugg - 36
• Deep sequencing: 22977 reads, 297 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-200a-5p
  • miRDB:rno-miR-200a-5p

Mature sequence rno-miR-200a-3p

• Accession: MIMAT0000874
• Previous IDs: rno-miR-200a
• Sequence: 54 - uaacacugucugguaacgaugu - 75
• Deep sequencing: 1428279 reads, 484 experiments
• Evidence: experimental; cloned [1], SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-200a-3p
  • miRDB:rno-miR-200a-3p
  • microrna.org:rno-miR-200a-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: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).