Variant transcript analysis of murine TIR-containing adaptor molecule (TICAM)1. (a) Genomic arrangement of murine TIR-containing adaptor molecule (Ticam)1 on the minus strand of mouse chromosome 17. TC (cap-analysis gene expression (CAGE) tag clusters) indicate transcriptional start sites (TSSs) from CAGE data (indicated by arrows). Two Ticam1 transcripts initiate from alternate TSSs: variant 1 from the major TSS (81 CAGE tags) and variant 2 from a cluster of CAGE tags between 54,549 K and 54,550 K. (b) The probe track indicates the exon junctions spanned by oligoprobes on the splicing array. Probe 8C spans exons 1-2, 7I lies in the region spliced between exons 1b and 2b, and 5S spans the intron/exon boundary of exon 2b. These probes are unique to variant 1. 6A spans the junction between exons 1b and 2b and is unique to variant 2. (c) Scatter plot shows the distribution of expression detected by each probe. The average signal of each probe (unstimulated bone-marrow derived macrophages (BMMs) and BMMs subjected to seven hours of stimulation with lipopolysaccharide (+7 hrs LPS); x axis) was plotted against the normalized ratio of +7 hrs LPS/unstimulated BMM (y axis). Junction probes are indicated by a triangle; intronic or intergenic controls are indicated by open boxes; and exon probes indicated by black squares. Both the full-length open reading frame (isoform 1) and the spliced 310 amino acid protein (isoform 2) are detected on the splicing array. CAGE data and splicing array expression analysis indicates that the full-length variant is more abundant.