Synteny plots are useful for visualising the conservation of gene order and content across different chromosomal
regions.
Plot settings:
You can choose the synteny block to plot by pasting any gene/protein identifier into the textbox below and
hitting 'search'. The identifier will be matched against our database to find the block that it appears in.
Alternatively, you can click the 'synteny' link in any gene table on our website to jump straight to the
relevant block (see table navigation below). If the query gene is part of multiple synteny blocks, a pagination
nav will be displayed below the plot.
Plot navigation:
Synteny blocks can contain chromosomal regions from multiple species, represented by grey horizontal lines. Each
gene is displayed as a light grey rectangle. The width of the rectangle is proportional to the length of the
gene that it represents. Light grey lines connecting two or more rectangles represent homology relationships.
Hovering the mouse cursor over a gene will display additional information. Individual genes and all of their
homology relationships can be highlighted by clicking on the desired gene (clicking again will return it to
normal). Alternatively, pressing the 's' key will enable selection mode - in this mode, the cursor will appear
as a crosshsair. While in selection mode, hold down the left mouse button and draw a rectangle around all of the
genes that you wish to select. Selection mode can be cancelled by pressing the 'escape' key. Highlighted genes
will appear as selected in the table and vice versa. The selection can be cleared by pressing the 'cancel'
button above the gene table.
Data download:
Genes that appear in the plot will be displayed in a table below. All gene data can be downloaded by pressing
the 'download' button above the table. Alternatively, inidividual gene data can be downloaded by selecting the
desired rows. This can be done by clicking the checkbox next to each gene name. The selection can be cleared by
pressing the 'cancel' button above the table.
Table navigation:
The 'protein' column provides a link to the relevant pages in our microsynteny and gene tree viewer utilities
respectively. The 'source' column provides a link to the external database from which each gene was sourced.
View our documentation
for additional info.