Stem-loop sequence dme-mir-999

Accession

MI0005861 (change log)

Description

Drosophila melanogaster miR-999 stem-loop

Gene family

MIPF0000852; mir-999

Literature search

1 open access papers mention dme-mir-999
(1 sentences)

Stem-loop

   aa  a  cc   --        cc         a      g       u  au 
5'   gg ug  gcu  caauuacc  gacauaguc uacggu aauguug gu  u
     || ||  |||  ||||||||  ||||||||| |||||| ||||||| ||  g
3'   cc ac  cga  guuggugg  cugugucag auguca uuguaac ca  g
   ca  g  -c   cc        cu         a      a       -  ga 

Deep sequencing

627776 reads, 3.95e+03 reads per million, 49 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (Release_6; GCA_000001215.4): chr3R: 21798227-21798331 [-]
• Overlapping transcripts:

  sense

  FBtr0084162 ; CASK-RA; intron 2

  FBtr0112872 ; CASK-RD; intron 3

  FBtr0112873 ; CASK-RE; intron 3

  FBtr0301328 ; CASK-RG; intron 3

  FBtr0084161 ; CASK-RB; intron 8

  FBtr0301327 ; CASK-RF; intron 8

  FBtr0330368 ; CASK-RH; intron 8

Clustered miRNAs

< 10kb from dme-mir-999

• dme-mir-4969: chr3R: 21798514-21798671 [-]
• dme-mir-999: chr3R: 21798227-21798331 [-]

Database links

• RNAcentral:URS00007B9916_7227
• miRBase Tracker:MI0005861

Mature sequence dme-miR-999-5p

• Accession: MIMAT0020899
• Sequence: 24 - acauagucauacggugaauguu - 45
• Deep sequencing: 666 reads, 47 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS0000412A48_7227

Mature sequence dme-miR-999-3p

• Accession: MIMAT0005519
• Previous IDs: dme-miR-999
• Sequence: 62 - uguuaacuguaagacugugucu - 83
• Deep sequencing: 627086 reads, 49 experiments
• Evidence: experimental; 454 [1-2], Illumina [2]
• Database links:
  • RNAcentral:URS000045B25B_7227
• Predicted targets:
  • TargetScanFly:dme-miR-999
  • microrna.org:dme-miR-999-3p

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).