Description
This track shows the exon junctions extracted from spliced RNA-Seq reads
that have been aligned to the genome. The splice junctions were
identified by the regtools
junctions extract subprogram. The RNA-Seq data were retrieved from the NCBI Sequence
Read Archive using the following accession numbers:
The splice junction predictions from the different libraries are filtered
and merged together into a single set of predictions. The predictions are
color-coded based on the number of reads supporting the junction:
| Color | Number of reads |
|---|
| > 1000 |
| 500-999 |
| 100-499 |
| 50-99 |
| 10-49 |
| < 10 |
References
Yang H, Jaime M, Polihronakis M, Kanegawa K, Markow T, Kaneshiro K, Oliver B.
Re-annotation of eight Drosophila genomes.
Life Sci Alliance. 2018 Dec 24;1(6):e201800156.
Rogers RL, Shao L, Sanjak JS, Andolfatto P, Thornton KR.
Revised annotations, sex-biased expression, and lineage-specific genes in the Drosophila melanogaster group.
G3 (Bethesda). 2014 Oct 1;4(12):2345-51.
Brown JB. et al.
Diversity and dynamics of the Drosophila transcriptome.
Nature. 2014 Aug 28;512(7515):393-9.
Kumar N, Creasy T, Sun Y, Flowers M, Tallon LJ, Dunning Hotopp JC.
Efficient subtraction of insect rRNA prior to transcriptome analysis of Wolbachia-Drosophila lateral gene transfer.
BMC Res Notes. 2012 May 14;5:230.
Kim D, Langmead B, Salzberg SL.
HISAT: a fast spliced aligner with low memory requirements.
Nat Methods. 2015 Apr;12(4):357-60.
Wang L, Wang S, Li W. RSeQC: quality control of RNA-seq experiments. Bioinformatics. 2012 Aug 15;28(16):2184-5.
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