Stem-loop sequence dme-mir-6-2

Accession

MI0000125 (change log)

Description

Drosophila melanogaster miR-6-2 stem-loop

Gene family

MIPF0000119; mir-6

Literature search

8 open access papers mention dme-mir-6-2
(33 sentences)

Stem-loop

        c        uu ug   c       u  -  g 
5' uaacc aagggaac  c  cug ugauaua ua uu a
   ||||| ||||||||  |  ||| ||||||| || ||  
3' guugg uuuucuug  g  gac acuauau au aa a
        u        uc gu   -       c  c  a 

Deep sequencing

22336 reads, 412 reads per million, 41 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (Release_6; GCA_000001215.4): chr2R: 19660869-19660942 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from dme-mir-6-2

• dme-mir-309: chr2R: 19661706-19661774 [-]
• dme-mir-3: chr2R: 19661595-19661663 [-]
• dme-mir-286: chr2R: 19661422-19661521 [-]
• dme-mir-4: chr2R: 19661289-19661369 [-]
• dme-mir-5: chr2R: 19661158-19661226 [-]
• dme-mir-6-1: chr2R: 19661003-19661084 [-]
• dme-mir-6-2: chr2R: 19660869-19660942 [-]
• dme-mir-6-3: chr2R: 19660716-19660795 [-]

Database links

• RNAcentral:URS0000798419_7227
• miRBase Tracker:MI0000125

Mature sequence dme-miR-6-2-5p

• Accession: MIMAT0020788
• Sequence: 8 - agggaacuucugcugcugauaua - 30
• Deep sequencing: 3129 reads, 30 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS0000114591_7227

Mature sequence dme-miR-6-3p

• Accession: MIMAT0000111
• Previous IDs: dme-miR-6
• Sequence: 48 - uaucacaguggcuguucuuuuu - 69
• Deep sequencing: 57903 reads, 35 experiments
• Evidence: experimental; cloned [1,3], Northern [1-2], 454 [4], Illumina [5]
• Database links:
  • RNAcentral:URS000049A51E_7227
• Predicted targets:
  • TargetScanFly:dme-miR-6
  • microrna.org:dme-miR-6-3p

References

1. PMID:11679670 "Identification of novel genes coding for small expressed RNAs" Lagos-Quintana M, Rauhut R, Lendeckel W, Tuschl T Science. 294:853-858(2001).
2. PMID:12812784 "Temporal regulation of microRNA expression in Drosophila melanogaster mediated by hormonal signals and broad-Complex gene activity" Sempere LF, Sokol NS, Dubrovsky EB, Berger EM, Ambros V Dev Biol. 259:9-18(2003).
3. 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).
4. 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).
5. 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).