Stem-loop sequence dme-mir-959

Accession

MI0005814 (change log)

Description

Drosophila melanogaster miR-959 stem-loop

Gene family

MIPF0000910; mir-959

Literature search

2 open access papers mention dme-mir-959
(13 sentences)

Stem-loop

   uuaa     uu       - u        gg u        --a    uu 
5'     cuuug  cuauauu c uaguacuc  g ugauaaag   ccuu  c
       |||||  ||||||| | ||||||||  | ||||||||   ||||   
3'     gaaau  gauauaa g auuauggg  c acuguuuc   ggga  u
   -aaa     uu       a u        gg u        cga    cu 

Deep sequencing

4446 reads, 126 reads per million, 43 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (Release_6; GCA_000001215.4): chr2L: 5640940-5641037 [+]
• Overlapping transcripts:

  antisense

  FBtr0079114 ; CG31646-RA; intron 4

Clustered miRNAs

< 10kb from dme-mir-959

• dme-mir-959: chr2L: 5640940-5641037 [+]
• dme-mir-960: chr2L: 5641063-5641155 [+]
• dme-mir-961: chr2L: 5641191-5641279 [+]
• dme-mir-962: chr2L: 5641298-5641389 [+]
• dme-mir-963: chr2L: 5641990-5642078 [+]
• dme-mir-964: chr2L: 5642102-5642201 [+]

Database links

• RNAcentral:URS00004FFFD6_7227
• miRBase Tracker:MI0005814

Mature sequence dme-miR-959-5p

• Accession: MIMAT0020854
• Sequence: 20 - uuaguacucggguugauaaag - 40
• Deep sequencing: 1794 reads, 39 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS000052AAB8_7227

Mature sequence dme-miR-959-3p

• Accession: MIMAT0005473
• Previous IDs: dme-miR-959
• Sequence: 61 - uugucaucggggguauuaugaa - 82
• Deep sequencing: 2651 reads, 43 experiments
• Evidence: experimental; 454 [1-2], Illumina [2]
• Database links:
  • RNAcentral:URS00002B79AD_7227
• Predicted targets:
  • TargetScanFly:dme-miR-959
  • microrna.org:dme-miR-959-3p

References

1. 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).
2. 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).