Stem-loop sequence dme-mir-13a

Accession

MI0000133 (change log)

Description

Drosophila melanogaster miR-13a stem-loop

Gene family

MIPF0000049; mir-2

Literature search

12 open access papers mention dme-mir-13a
(25 sentences)

Stem-loop

       u     c      -        a   --uc  cu 
5' uacg aacuc ucaaag gguuguga aug    ga  a
   |||| ||||| |||||| |||||||| |||    ||   
3' gugc uugag aguuuu ccgacacu uac    cu  u
       u     u      a        a   ucau  au 

Deep sequencing

367893 reads, 7.58e+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: 15417542-15417616 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from dme-mir-13a

• dme-mir-2c: chr3R: 15417744-15417845 [-]
• dme-mir-13a: chr3R: 15417542-15417616 [-]
• dme-mir-13b-1: chr3R: 15417408-15417475 [-]

Database links

• RNAcentral:URS00000A9F46_7227
• Rfam:mir-2
• miRBase Tracker:MI0000133

Mature sequence dme-miR-13a-5p

• Accession: MIMAT0020795
• Sequence: 8 - cuccucaaaggguugugaaaug - 29
• Deep sequencing: 370 reads, 40 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS0000379C55_7227

Mature sequence dme-miR-13a-3p

• Accession: MIMAT0000118
• Previous IDs: dme-miR-13a
• Sequence: 48 - uaucacagccauuuugaugagu - 69
• Deep sequencing: 367510 reads, 49 experiments
• Evidence: experimental; cloned [1], Northern [1-2], 454 [3-4], Illumina [4]
• Database links:
  • RNAcentral:URS00002C04F3_7227
• Predicted targets:
  • TargetScanFly:dme-miR-13a
  • microrna.org:dme-miR-13a-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: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).
4. 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).