“Switching” expression from Gm6300 to Slc7a12 with induction of diabetes.

<p>RNA-Seq expression data for <i>Slc7a12</i> and for the “pseudogene” <i>Gm6300</i>, mapped on the mm9 murine genome assembly. The <i>Gm6300</i> pseudogene shares homology with <i>Slc7a12</i> and is ∼125 kb upstream of <i>Slc7a12</i> on chr3 (<b>A</b>); they appear to be paralogs. <b>B</b>. RNA-Seq expression data (green) for <i>Gm6300</i> are shown for Control condition (representative sample Ot3451). Also shown are mm9 (chromosome 3) genomic coordinates, and clone AK143764 (the only known cDNA or EST matching the RefSeq <i>Gm6300</i> gene; see Results). <b>C</b>. Depicted are the expressed regions of <i>Slc7a12</i> (in green; between chr3∶14,480,680–14,508,475) from a representative tracing of RNA-Seq transcripts from diabetic mouse kidney (sample Ot3458). Also shown is the exonic structure of the canonical <i>Slc7a12</i> reference sequence (RefSeq). For <b>B</b> and <b>C</b>, note the alignment of expressed transcripts with the predicted exons. Not shown, there was essentially no <i>Slc7a12</i> expression under Control conditions, and no <i>Gm6300</i> expression under diabetic conditions (see text and <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0096987#pone-0096987-g006" target="_blank">Figure 6</a>). For the canonical gene sequences AK143764 and <i>Slc7a12</i>, exons are indicated by blue boxes, introns by an intervening blue line; CDS (in contrast to UTR) is designated by the taller blue boxes. Intron-spanning real-time PCR primer pairs (two primer/probe sets per gene, designated “_1” and “_2”) are diagrammed and are used for generating data in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0096987#pone-0096987-g006" target="_blank">Figure 6</a>. The scale bar denotes 1 kb for <b>B</b> and <b>C</b>. Exons are labeled 1 through 6 (<b>B</b>) and 1 through 4 (<b>C</b>), based upon mapped RNA-Seq reads.