Stem-loop sequence gga-mir-20b

Accession

MI0001517 (change log)

Description

Gallus gallus miR-20b stem-loop

Gene family

MIPF0000001; mir-17

Literature search

8 open access papers mention gga-mir-20b
(41 sentences)

Stem-loop

   ------          -ca           g     g   c  gg 
5'       cuagcaguau   aagugcucaua ugcag uag uu  c
         ||||||||||   ||||||||||| ||||| ||| ||  a
3'       gauugucaug   uucacgggugu auguc auc ag  u
   gaaaua          aca           a     -   c  gu 

Deep sequencing

20948 reads, 420 reads per million, 5 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (Gallus_gallus-5.0; GCA_000002315.3): chr4: 3994839-3994923 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from gga-mir-20b

• 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:MIR20B
• RNAcentral:URS000075AB43_9031
• miRBase Tracker:MI0001517

Mature sequence gga-miR-20b-5p

• Accession: MIMAT0001411
• Sequence: 11 - caaagugcucauagugcagguag - 33
• Deep sequencing: 20904 reads, 5 experiments
• Evidence: experimental; cloned [2], Illumina [3]
• Predicted targets:
  • TargetScanVert:gga-miR-20b-5p
  • miRDB:gga-miR-20b-5p

Mature sequence gga-miR-20b-3p

• Accession: MIMAT0026551
• Sequence: 49 - acuguaaugugggcacuuacag - 70
• Deep sequencing: 43 reads, 5 experiments
• Evidence: experimental; Illumina [3]
• Database links:
  • RNAcentral:URS000075EC3D_9031
• Predicted targets:
  • TargetScanVert:gga-miR-20b-3p
  • miRDB:gga-miR-20b-3p

References

1. PMID:15590942 "Transcriptome analysis for the chicken based on 19,626 finished cDNA sequences and 485,337 expressed sequence tags" Hubbard SJ, Grafham DV, Beattie KJ, Overton IM, McLaren SR, Croning MD, Boardman PE, Bonfield JK, Burnside J, Davies RM, Farrell ER, Francis MD, Griffiths-Jones S, Humphray SJ, Hyland C, Scott CE, Tang H, Taylor RG, Tickle C, Brown WR, Birney E, Rogers J, Genome Res. 15:174-183(2005).
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 " McBride D, Carre W, Law A, Clinton M Unpublished.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).