Gene model for the ortholog of Pi3K21B in Drosophila eugracilis

Abstract

Gene model for the ortholog of Phosphatidylinositol 3-kinase 21B (Pi3K21B) in the D. eugracilis May 2021 (Stanford ASM1815383v1/DeugRefSeq2) Genome Assembly (GenBank Accession: GCF_018153835.1) of Drosophila eugracilis. This ortholog was characterized as part of a developing dataset to study the evolution of the Insulin/insulin-like growth factor signaling pathway (IIS) across the genus Drosophila using the Genomics Education Partnership gene annotation protocol for Course-based Undergraduate Research Experiences.

Figure 1:. Pi3K21B gene model comparison between Drosophila eugracilis and Drosophila melanogaster. (A) Synteny comparison of the genomic neighborhoods for Pi3K21B in D. melanogaster and D. eugracilis.

Thin underlying arrows indicate the DNA strand within which the target gene–Pi3K21B–is located in D. melanogaster (top) and D. eugracilis (bottom). The thin arrow pointing to the right indicates that Pi3K21B is on the positive (+) strand in D. melanogaster, and the thin arrow pointing to the left indicates that Pi3K21B is on the negative (−) strand in D. eugracilis. The wide gene arrows pointing in the same direction as Pi3K21B are on the same strand relative to the thin underlying arrows, while wide gene arrows pointing in the opposite direction of Pi3K21B are on the opposite strand relative to the thin underlying arrows. White gene arrows in D. eugracilis indicate orthology to the corresponding gene in D. melanogaster. Gene symbols given in the D. eugracilis gene arrows indicate the orthologous gene in D. melanogaster, while the locus identifiers are specific to D. eugracilis. (B) Gene Model in GEP UCSC Track Data Hub (Raney et al., 2014). The coding-regions of Pi3K21B in D. eugracilis are displayed in the User Supplied Track (black); coding CDSs are depicted by thick rectangles and introns by thin lines with arrows indicating the direction of transcription. Subsequent evidence tracks include BLAT Alignments of NCBI RefSeq Genes (dark blue, alignment of Ref-Seq genes for D. eugracilis), Spaln of D. melanogaster Proteins (purple, alignment of Ref-Seq proteins from D. melanogaster), Transcripts and Coding Regions Predicted by TransDecoder (dark green), RNA-Seq from Adult Females, Adult Males, and Mixed Embryos (red, light blue, and dark pink, respectively; alignment of Illumina RNA-Seq reads from D. eugracilis), and Splice Junctions Predicted by regtools using D. eugracilis RNA-Seq (SRP008375, PRJNA73487). Splice junctions shown have a minimum read-depth of 10 with 50–99 and 100–499 supporting reads shown in green and pink, respectively. (C) Dot Plot of Pi3K21B-PE in D. melanogaster (x-axis) vs. the orthologous peptide in D. eugracilis (y-axis). Amino acid number is indicated along the left and bottom; CDS number is indicated along the top and right, and CDSs are also highlighted with alternating colors. Line breaks in the dot plot indicate mismatching amino acids at the specified location between species.