RegulonDB 11.2: Gene local context Help
Gene local context Help
Image of the gene local context
The figure Gene Local Context shows the genomic region surrounding the query gene.
The coordinates of this region are displayed at the ends of the figure. The
image shows all RegulonDB objects contained within this region; the meaning of
all graphic features can be found at:
Graphic code for objects and colors.
Object properties in the image:
a) Orientation. The objects are drawn depending on their strand
orientation: on the top of the line, elements in forward, and on the
bottom to elements in reverse.
b) Relationship to the query gene. Objects relating to the query gene are
displayed in color or in black, while for that unrelated are displayed in
c) Confidence. Objects with strong evidence are plotted with solid lines,
whereas those with weak evidence are shown with dashed lines.
d) Information of the object. All the objects have a tooltip by rolling the
mouse over the graphic element, by means of which a brief description is
e) Navigation. Clicking on a gene that is displayed in the figure, the user
can navigate to the page describing the selected gene.
Three buttons allow you to zoom in (+), zoom out (-), and expand 5? region (<<>>).
The + and - buttons allow you to zoom in and zoom out, respectively by clicking on the button located above the image of the gene
The <<>> button displays 500bp upstream of query gene to 200bp inside of query gene; although, in the case that the
query gene is less than 200bp, the graph displays just until its end. The displayed region is amplified; each object position is multiplied
by two, doubling the size of each of them. Incomplete objects contained within those 700bp are indicated by a zig-zag line.
The >><< button reset to the gene local context image.
Furthermore, the help button (?) provides a window designed to present a description of the graphic code for each displayed element in the
image, as well as, the color code used.