Stem-loop sequence rno-mir-200c

Accession

MI0000942 (change log)

Description

Rattus norvegicus miR-200c stem-loop

Gene family

MIPF0000019; mir-8

Literature search

64 open access papers mention rno-mir-200c
(415 sentences)

Stem-loop

     cu    -      a        u   u   gg 
5' cc  cguc uuaccc gcaguguu ggg gcu  u
   ||  |||| |||||| |||||||| ||| |||  u
3' gg  guag aauggg cgucauaa cuc uga  g
     ag    u      c        u   -   gg 

Deep sequencing

296693 reads, 254 reads per million, 442 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr4: 157236786-157236854 [-]
• Overlapping transcripts:

  antisense

  ENSRNOT00000053710 ; Mir3575-201; exon 1

Clustered miRNAs

< 10kb from rno-mir-200c

• rno-mir-200c: chr4: 157236786-157236854 [-]
• rno-mir-3575: chr4: 157236759-157236873 [+]
• rno-mir-141: chr4: 157236346-157236439 [-]

Database links

• EntrezGene:Mir200c
• miRBase Tracker:MI0000942

Mature sequence rno-miR-200c-5p

• Accession: MIMAT0017150
• Previous IDs: rno-miR-200c*
• Sequence: 5 - cgucuuacccagcaguguuug - 25
• Deep sequencing: 526 reads, 142 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-200c-5p
  • miRDB:rno-miR-200c-5p

Mature sequence rno-miR-200c-3p

• Accession: MIMAT0000873
• Previous IDs: rno-miR-200c
• Sequence: 45 - uaauacugccggguaaugaug - 65
• Deep sequencing: 296119 reads, 442 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-200c-3p
  • miRDB:rno-miR-200c-3p
  • microrna.org:rno-miR-200c-3p

References

1. PMID:14573789 "Reduced accumulation of specific microRNAs in colorectal neoplasia" Michael MZ, O' Connor SM, van Holst Pellekaan NG, Young GP, James RJ Mol Cancer Res. 1:882-891(2003).
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).