Stem-loop sequence dme-mir-317

Accession

MI0000429 (change log)

Description

Drosophila melanogaster miR-317 stem-loop

Gene family

MIPF0000144; mir-317

Literature search

11 open access papers mention dme-mir-317
(22 sentences)

Stem-loop

       --a  u         aua    --     c      u aa  a 
5' augc   ac gccauuggg   cacc  cugug ucgcuu g  ug a
   ||||   || |||||||||   ||||  ||||| |||||| |  || a
3' uacg   ug cggugaccu   gugg  gacac agugaa c  ac u
       guu  c         aug    uc     a      - ga  g 

Deep sequencing

602480 reads, 1.1e+04 reads per million, 49 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Release_6; GCA_000001215.4): chr3R: 10091126-10091217 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from dme-mir-317

• dme-mir-317: chr3R: 10091126-10091217 [+]
• dme-mir-277: chr3R: 10100022-10100121 [+]
• dme-mir-34: chr3R: 10100936-10101034 [+]

Database links

• RNAcentral:URS00001D6BCF_7227
• miRBase Tracker:MI0000429

Mature sequence dme-miR-317-5p

• Accession: MIMAT0020843
• Sequence: 14 - ugggauacacccugugcucgcu - 35
• Deep sequencing: 26808 reads, 49 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS0000056895_7227

Mature sequence dme-miR-317-3p

• Accession: MIMAT0000409
• Previous IDs: dme-miR-317
• Sequence: 56 - ugaacacagcuggugguauccagu - 79
• Deep sequencing: 574126 reads, 49 experiments
• Evidence: experimental; cloned [1], 454 [2-3], Illumina [3]
• Database links:
  • RNAcentral:URS000043A3FC_7227
• Predicted targets:
  • TargetScanFly:dme-miR-317
  • microrna.org:dme-miR-317-3p

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).