Figure 6

The novel gene trapped in 5C11 may encode noncoding RNA transcripts with a very restricted expression pattern. (A) Longer exposure (10-day) of the Northern blot as shown in Figure 5B revealed the presence of short transcripts of 5C11. These heterogeneous short transcripts, marked by a bracket, were also down-regulated during ES cell differentiation by comparing Lanes 1, 2, 5 with Lanes 3, 4, 6. (B) Short transcripts of 5C11 were predicted to form very stable secondary structures. The nucleic acid folding program (mfold) was used for the prediction [47]. One predicted folded RNA structure for a full-length cDNA is shown here as an example. (C) A diagram is shown for the exon-intron organization of one of the isoforms of 5C11 transcripts. "Int" stands for the retroviral integration site in the ES clone 5C11. This isoform is predicted to form highly stable secondary structures (Figure 6B). (D) 5C11 transcripts are not detectable in any adult mouse organs by Northern blot. Total RNA samples were derived from the following adult mouse organs: Br, Brain; H, Heart; IN, Intestine; K, Kidney; Li, Liver; Lu, Lung; O, Ovary; S, Spleen; Te, Testis; Th, Thymus; U, Uterus. Total RNA was also derived from wild-type TC1 ES cells (TC1). The gel positions of the ribosomal RNA transcripts were marked.