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. 2000 Nov;20(22):8329–8342. doi: 10.1128/mcb.20.22.8329-8342.2000

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Copyright © 2000, American Society for Microbiology

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FIG. 2 — (A) The 4.5-kb EcoRI genomic fragment containing the β3 and Δβ3 locus. Exons A (342 bp) and B (315 bp) are in continuity with the 101-bp first common TRβ exon. Noncoding sequence is shown as dotted lines, intron/exon boundaries are shown by vertical bars and the exon A 5′ boundary is shown by four arrowheads representing a 20-bp region mapped by 5′-RACE and inverse RT-PCR. The changing-point splice site precedes the first common exon. Asterisks mark each end of the 4.5-kb fragment and are shown in panel D to indicate the location of this clone within the complete TRβ gene. (B) Novel cDNA clones obtained by 5′-RACE from a UMR 106 library. TRβ3 contains exons A and B; in TRΔβ3, exon B is skipped and exon A splices to the changing point. AP1 and AP2 are forward primers complementary to adapters used in library construction. Arrows show locations of the reverse primers used for 5′-RACE. Arrowheads below exon A indicate stop codons in each reading frame, and the arrow below exon B show an ORF in continuity with the rest of TRβ. The sequence at amino acid 103 in TRβ3 shows the next in-frame AUG codon within a Kozak consensus sequence and represents the Δβ3 initiation codon. (C) TRβ3 and Δβ3 predicted proteins of 390 amino acids (44.6 kDa) and 288 amino acids (32.8 kDa). β3 contains a 23-amino-acid N terminus encoded by exon B; Δβ3 lacks a DNA binding domain and results from translation initiated at the downstream AUG codon. (D) Structural arrangement of the TRβ gene as deduced from published data from Xenopus (51, 65), human (3, 48), and mouse (18, 21, 61) TRβ genes and from data obtained in this study with rats. Exons are shown in the upper part of the diagram as solid lines and as shaded boxes beneath; introns are shown as dotted lines and below as thin continuous lines. In the lower part, promoter regions for β1, β2, and β3/Δβ3 are shown as thick solid lines, and the cross lines flanking the β2 region indicate that the relative positions of the β1 and β2 loci have not been determined in any species. Asterisks indicate the location of the 4.5-kb rat genomic fragment shown in panel A and cloned in this study. The common coding exons 3 to 8 lie 3′ to the changing-point splice site, contain the DNA and ligand binding domains of TRβ, and are designated according to the published nomenclature for mouse TRβ1 (18, 21), which corresponds to exons 5 to 10 in human TRβ (3) and differs from that previously reported for mouse TRβ2 (61) and Xenopus (51, 65).

FIG. 2 — (A) The 4.5-kb EcoRI genomic fragment containing the β3 and Δβ3 locus. Exons A (342 bp) and B (315 bp) are in continuity with the 101-bp first common TRβ exon. Noncoding sequence is shown as dotted lines, intron/exon boundaries are shown by vertical bars and the exon A 5′ boundary is shown by four arrowheads representing a 20-bp region mapped by 5′-RACE and inverse RT-PCR. The changing-point splice site precedes the first common exon. Asterisks mark each end of the 4.5-kb fragment and are shown in panel D to indicate the location of this clone within the complete TRβ gene. (B) Novel cDNA clones obtained by 5′-RACE from a UMR 106 library. TRβ3 contains exons A and B; in TRΔβ3, exon B is skipped and exon A splices to the changing point. AP1 and AP2 are forward primers complementary to adapters used in library construction. Arrows show locations of the reverse primers used for 5′-RACE. Arrowheads below exon A indicate stop codons in each reading frame, and the arrow below exon B show an ORF in continuity with the rest of TRβ. The sequence at amino acid 103 in TRβ3 shows the next in-frame AUG codon within a Kozak consensus sequence and represents the Δβ3 initiation codon. (C) TRβ3 and Δβ3 predicted proteins of 390 amino acids (44.6 kDa) and 288 amino acids (32.8 kDa). β3 contains a 23-amino-acid N terminus encoded by exon B; Δβ3 lacks a DNA binding domain and results from translation initiated at the downstream AUG codon. (D) Structural arrangement of the TRβ gene as deduced from published data from Xenopus (51, 65), human (3, 48), and mouse (18, 21, 61) TRβ genes and from data obtained in this study with rats. Exons are shown in the upper part of the diagram as solid lines and as shaded boxes beneath; introns are shown as dotted lines and below as thin continuous lines. In the lower part, promoter regions for β1, β2, and β3/Δβ3 are shown as thick solid lines, and the cross lines flanking the β2 region indicate that the relative positions of the β1 and β2 loci have not been determined in any species. Asterisks indicate the location of the 4.5-kb rat genomic fragment shown in panel A and cloned in this study. The common coding exons 3 to 8 lie 3′ to the changing-point splice site, contain the DNA and ligand binding domains of TRβ, and are designated according to the published nomenclature for mouse TRβ1 (18, 21), which corresponds to exons 5 to 10 in human TRβ (3) and differs from that previously reported for mouse TRβ2 (61) and Xenopus (51, 65).

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