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Fig. 1 | BMC Bioinformatics

Fig. 1

From: Most of the tight positional conservation of transcription factor binding sites near the transcription start site reflects their co-localization within regulatory modules

Fig. 1

Co-localization of Transcription Factor Binding Sites (TFBSs) within Regulatory Modules (RMs). The DNA coordinate systems near 12 hypothetical genes (horizontal grey lines) are shown oriented from 5′ to 3′ on the plus strand, as indicated at the bottom. The genes are aligned according to their TSSs (vertical black lines). Within TF molecular complexes during transcription, RNA polymerase II and non-specific TFs (grey rounded rectangles) interact with DNA in specific positions relative to the TSS, with different specific TFs interacting with the TFBSs (colored shapes) within RMs. Because the RMs have similar structures (indicated by dotted black rounded rectangles), their TFBSs have tight positional preferences relative to each other. In other words, the TFBSs must co-localize within the RMs

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