Journal: BMC Genomics

Article Title: Reverse transcriptional profiling: non-correspondence of transcript level variation and proximal promoter polymorphism

doi: 10.1186/1471-2164-6-110

Figure Lengend Snippet: Schematics of proximal promoters. At least one kb of the proximal promoters of 34 candidate genes whose transcripts vary (left and center columns) or do not vary (right column) in expression between D. melanogaster strains. Genes whose expression is greater in the Russian 2b (R2b) strain are shown in the left column and those whose expression is greater in the Oregon R (OrR) strain in the center column. Genes with fewer polymorphisms are shown in Figure 1 and those with seven or more are shown in Figure 2. The long horizontal lines for each gene designate the sequence of the proximal promoter with changes in the R2b strain shown above the line and those in the OrR strain below the line. The large, bent arrows indicate transcriptional start sites. Single Nucleotide Polymorphisms (SNPs) are shown as small vertical lines and indels as triangles, with the sequence or length in nucleotides (nt). The numbers of SNPs are listed where there are too many to illustrate clearly. Putative transcription factor binding sites created or removed by the SNP or indel are shown above or below the polymorphisms, with short horizontal lines or arrows designating the included polymorphisms. Because there are too many to illustrate clearly, putative transcription factor binding sites are not shown for CYP9C1 (CG3616), Fkbp13 (CG9847), qkr58E-3 (CG3584), bin (CG18647), tensin (CG9379), Cry (CG16963), KP78a (CG6715), Cng (CG7779), Fer2 (CG5952), Mt2 (CG10692). Shaded boxes designate introns in the 5'untranslated regions (UTRs).

Article Snippet: In qkr58E-3 (CG3584), a SNP and variation in the length of a poly-T tract resulted in T 3 GT 4 in the Oregon R strain, T 9 in the Celera strain and T 11 in the Russian 2b strain.

Techniques: Expressing, Sequencing, Binding Assay

Journal: BMC Genomics

Article Title: Reverse transcriptional profiling: non-correspondence of transcript level variation and proximal promoter polymorphism

doi: 10.1186/1471-2164-6-110

Figure Lengend Snippet: Schematics of proximal promoters. At least one kb of the proximal promoters of 34 candidate genes whose transcripts vary (left and center columns) or do not vary (right column) in expression between D. melanogaster strains. Genes whose expression is greater in the Russian 2b (R2b) strain are shown in the left column and those whose expression is greater in the Oregon R (OrR) strain in the center column. Genes with fewer polymorphisms are shown in Figure 1 and those with seven or more are shown in Figure 2. The long horizontal lines for each gene designate the sequence of the proximal promoter with changes in the R2b strain shown above the line and those in the OrR strain below the line. The large, bent arrows indicate transcriptional start sites. Single Nucleotide Polymorphisms (SNPs) are shown as small vertical lines and indels as triangles, with the sequence or length in nucleotides (nt). The numbers of SNPs are listed where there are too many to illustrate clearly. Putative transcription factor binding sites created or removed by the SNP or indel are shown above or below the polymorphisms, with short horizontal lines or arrows designating the included polymorphisms. Because there are too many to illustrate clearly, putative transcription factor binding sites are not shown for CYP9C1 (CG3616), Fkbp13 (CG9847), qkr58E-3 (CG3584), bin (CG18647), tensin (CG9379), Cry (CG16963), KP78a (CG6715), Cng (CG7779), Fer2 (CG5952), Mt2 (CG10692). Shaded boxes designate introns in the 5'untranslated regions (UTRs).

Article Snippet: In qkr58E-3 (CG3584), a SNP and variation in the length of a poly-T tract resulted in T 3 GT 4 in the Oregon R strain, T 9 in the Celera strain and T 11 in the Russian 2b strain.

Techniques: Expressing, Sequencing, Binding Assay