Stem-loop sequence dme-mir-303

Accession

MI0000409 (change log)

Description

Drosophila melanogaster miR-303 stem-loop

Gene family

MIPF0001013; mir-303

Literature search

2 open access papers mention dme-mir-303
(9 sentences)

Stem-loop

           ua     c c             aau 
5' ucuugguu  gguuu a aggaaacugguuu   a
   ||||||||  ||||| | |||||||||||||    
3' agaacuaa  cuaaa u uccuuugaucaaa   a
           uc     a c             agc 

Deep sequencing

1164 reads, 141 reads per million, 32 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Release_6; GCA_000001215.4): chrX: 4366179-4366248 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from dme-mir-303

• dme-mir-984: chrX: 4368646-4368735 [-]
• dme-mir-983-2: chrX: 4368483-4368581 [-]
• dme-mir-983-1: chrX: 4368309-4368399 [-]
• dme-mir-303: chrX: 4366179-4366248 [-]
• dme-mir-982: chrX: 4365806-4365898 [-]

Database links

• RNAcentral:URS00002E4351_7227
• miRBase Tracker:MI0000409

Mature sequence dme-miR-303-5p

• Accession: MIMAT0000388
• Previous IDs: dme-miR-303
• Sequence: 7 - uuuagguuucacaggaaacuggu - 29
• Deep sequencing: 991 reads, 30 experiments
• Evidence: experimental; cloned [1], 454 [2-3], Illumina [3]
• Database links:
  • RNAcentral:URS000061B9B4_7227
• Predicted targets:
  • TargetScanFly:dme-miR-303
  • microrna.org:dme-miR-303-5p

Mature sequence dme-miR-303-3p

• Accession: MIMAT0020824
• Sequence: 43 - cuaguuuccucuaaaauccuaa - 64
• Deep sequencing: 172 reads, 14 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS00000FF094_7227

References

1. PMID:12919683 "The small RNA profile during Drosophila melanogaster development" Aravin AA, Lagos-Quintana M, Yalcin A, Zavolan M, Marks D, Snyder B, Gaasterland T, Meyer J, Tuschl T Dev Cell. 5:337-350(2003).
2. PMID:17989254 "Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs" Ruby JG, Stark A, Johnston WK, Kellis M, Bartel DP, Lai EC Genome Res. 17:1850-1864(2007).
3. PMID:17989255 "Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes" Stark A, Kheradpour P, Parts L, Brennecke J, Hodges E, Hannon GJ, Kellis M Genome Res. 17:1865-1879(2007).