Stem-loop sequence gga-mir-18b

Accession

MI0001209 (change log)

Description

Gallus gallus miR-18b stem-loop

Gene family

MIPF0000001; mir-17

Literature search

3 open access papers mention gga-mir-18b
(4 sentences)

Stem-loop

   cgugguc         --   u    c   u     ua  --g     
5'        cuuguguua  agg gcau uag gcagu  gu   acgu 
          |||||||||  ||| |||| ||| |||||  ||   ||| a
3'        gaacacggu  ucc cgua auc cguca  ua   ugcg 
   -------         cu   u    a   c     uc  aga     

Deep sequencing

11175 reads, 120 reads per million, 5 experiments

Confidence

Annotation confidence: not enough data

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (Gallus_gallus-5.0; GCA_000002315.3): chr4: 3995020-3995103 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from gga-mir-18b

• gga-mir-106: chr4: 3995151-3995231 [-]
• gga-mir-18b: chr4: 3995020-3995103 [-]
• gga-mir-20b: chr4: 3994839-3994923 [-]
• gga-mir-19b-2: chr4: 3994707-3994789 [-]
• gga-mir-92-2: chr4: 3994560-3994640 [-]
• gga-mir-363: chr4: 3994409-3994515 [-]

Database links

• EntrezGene:
• miRBase Tracker:MI0001209

Mature sequence gga-miR-18b-5p

• Accession: MIMAT0001141
• Sequence: 15 - uaaggugcaucuagugcaguua - 36
• Deep sequencing: 10718 reads, 5 experiments
• Evidence: experimental; cloned [2], Illumina [3]
• Predicted targets:
  • TargetScanVert:gga-miR-18b-5p
  • miRDB:gga-miR-18b-5p

Mature sequence gga-miR-18b-3p

• Accession: MIMAT0026516
• Sequence: 55 - uacugcccuaaaugcuccuucuggc - 79
• Deep sequencing: 455 reads, 5 experiments
• Evidence: experimental; Illumina [3]
• Predicted targets:
  • TargetScanVert:gga-miR-18b-3p
  • miRDB:gga-miR-18b-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 " McBride D, Carre W, Law A, Clinton M Unpublished.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).