Fig 1. Shared homology between the D. melanogaster nxf2 gene and the TART-A TE.

(A) Gene, transcript, and TE annotations from FlyBase showing the nxf2 gene models along with the annotated TART-A TE insertion. Note that the TART-A annotation overlaps the 3′ CDS of nxf2. (B) BLAST hits between the RepBase TART-A sequence and the nxf2 transcript. Each colored box represents a single BLAST alignment. The 5′ UTR of TART-A is copied from a portion of the 3′ UTR during replication. The homology between nxf2 and the TART-A 3′ UTR is therefore mirrored in the 5′ UTR. The red arrow shows the region of the 3′ UTR that the 5′ UTR is copied from. (C). A zoomed-out multiple sequence alignment of nxf2 orthologs for 6 species from the melanogaster species group shows that the TART-like region of nxf2 is present in all 6 species. The actual alignment can be found in S1 Data. CDS, coding sequence; ORF, open reading frame; TE, transposable element.