Stem-loop sequence dme-mir-306

Accession

MI0000414 (change log)

Description

Drosophila melanogaster miR-306 stem-loop

Gene family

MIPF0000313; mir-306

Literature search

5 open access papers mention dme-mir-306
(18 sentences)

Stem-loop

   -g      c au   u       uu           --   - u 
5'   uccacu g  ggc cagguac  agugacucuca  aug c u
     |||||| |  ||| |||||||  |||||||||||  ||| |  
3'   ggguga c  ucg guccgug  ucacugggggu  uac g u
   ca      - cg   u       uc           uu   a u 

Deep sequencing

459745 reads, 7.82e+03 reads per million, 49 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Comments

miR-306 was identified and ends mapped by cloning. Reference [1] also identified a less predominantly expressed miR from the opposite arm of the precursor, designated miR-306* here

Genome context

• Coordinates (Release_6; GCA_000001215.4): chr2L: 16698404-16698488 [+]
• Overlapping transcripts:

  sense

  FBtr0100459 ; grp-RD; intron 4

  FBtr0080884 ; grp-RB; intron 6

  FBtr0080886 ; grp-RA; intron 6

  FBtr0080885 ; grp-RC; intron 7

Clustered miRNAs

< 10kb from dme-mir-306

• dme-mir-9c: chr2L: 16697924-16698015 [+]
• dme-mir-306: chr2L: 16698404-16698488 [+]
• dme-mir-79: chr2L: 16698554-16698650 [+]
• dme-mir-9b: chr2L: 16698744-16698834 [+]

Database links

• RNAcentral:URS000045FF67_7227
• miRBase Tracker:MI0000414

Mature sequence dme-miR-306-5p

• Accession: MIMAT0000393
• Previous IDs: dme-miR-306
• Sequence: 15 - ucagguacuuagugacucucaa - 36
• Deep sequencing: 448965 reads, 49 experiments
• Evidence: experimental; cloned [1], 454 [2-3], Illumina [3]
• Database links:
  • RNAcentral:URS00000F3F84_7227
• Predicted targets:
  • TargetScanFly:dme-miR-306
  • microrna.org:dme-miR-306-5p

Mature sequence dme-miR-306-3p

• Accession: MIMAT0000394
• Previous IDs: dme-miR-306*
• Sequence: 52 - gggggucacucugugccugugc - 73
• Deep sequencing: 10779 reads, 49 experiments
• Evidence: experimental; cloned [1], 454 [2-3], Illumina [3]
• Database links:
  • RNAcentral:URS0000464396_7227
• Predicted targets:
  • microrna.org:dme-miR-306-3p

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).