Stem-loop sequence gga-mir-16-1

Accession

MI0001185 (change log)

Description

Gallus gallus miR-16-1 stem-loop

Gene family

MIPF0000006; mir-15

Literature search

22 open access papers mention gga-mir-16-1
(227 sentences)

Stem-loop

   gucu   a    c         -  a        u uuaaaac 
5'     guc uacu uagcagcac gu aauauugg g       u
       ||| |||| ||||||||| || |||||||| |        
3'     cgg auga gucgucgug ca uuaugacc c       g
   ---u   a    a         u  a        u uauaaau 

Deep sequencing

181880 reads, 2.34e+03 reads per million, 5 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Gallus_gallus-5.0; GCA_000002315.3): chr1: 169399051-169399134 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from gga-mir-16-1

• gga-mir-15a: chr1: 169399193-169399275 [-]
• gga-mir-16-1: chr1: 169399051-169399134 [-]

Database links

• EntrezGene:
• RNAcentral:URS000075DEF4_9031
• miRBase Tracker:MI0001185

Mature sequence gga-miR-16-5p

• Accession: MIMAT0001116
• Sequence: 14 - uagcagcacguaaauauuggug - 35
• Deep sequencing: 362642 reads, 5 experiments
• Evidence: experimental; cloned [2], Illumina [3]
• Database links:
  • RNAcentral:URS00001996C3_9031
• Predicted targets:
  • TargetScanVert:gga-miR-16-5p
  • miRDB:gga-miR-16-5p

Mature sequence gga-miR-16-1-3p

• Accession: MIMAT0026500
• Sequence: 54 - ccaguauuaacugugcugcugaa - 76
• Deep sequencing: 589 reads, 5 experiments
• Evidence: experimental; Illumina [3]
• Predicted targets:
  • TargetScanVert:gga-miR-16-1-3p
  • miRDB:gga-miR-16-1-3p

References

1. PMID:15592404 "Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution" International Chicken Genome Sequencing Consortium Nature. 432:695-716(2004).
2. PMID:18256158 "MicroRNA profile of Marek's disease virus-transformed T-cell line MSB-1: predominance of virus-encoded microRNAs" Yao Y, Zhao Y, Xu H, Smith LP, Lawrie CH, Watson M, Nair V J Virol. 82:4007-4015(2008).
3. " McBride D, Carre W, Law A, Clinton M Unpublished.
4. PMID:18256158 "MicroRNA profile of Marek's disease virus-transformed T-cell line MSB-1: predominance of virus-encoded microRNAs" Yao Y, Zhao Y, Xu H, Smith LP, Lawrie CH, Watson M, Nair V J Virol. 82:4007-4015(2008).
5. PMID:23034410 "Birth and expression evolution of mammalian microRNA genes" Meunier J, Lemoine F, Soumillon M, Liechti A, Weier M, Guschanski K, Hu H, Khaitovich P, Kaessmann H Genome Res. 23:34-45(2013).