Help:Gbrowse: Difference between revisions
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==Other genomes== | ==Other genomes== | ||
The default entry point for this installation of Gbrowse is the ''E. coli'' K-12 MG1655 genome. However, it can display other genomes, including those of ''E. coli'' K-12 W3110, conjugative plasmids F and R100, and a number of bacteriophage. To access one of these other genomes, choose from the scroll down menu in the '''Data Source''' box. | The default entry point for this installation of Gbrowse is the ''E. coli'' K-12 MG1655 genome. However, it can display other genomes, including those of ''E. coli'' K-12 W3110, conjugative plasmids F and R100, and a number of bacteriophage. To access one of these other genomes, choose from the scroll down menu in the '''Data Source''' box. | ||
[[Category:Help]] | |||
Revision as of 21:08, 30 July 2007
Finding a particular gene or region
To direct Gbrowse to a particular region of the chromosome, type a gene name, a short sequence (minimum of 15 bp), or a nucleotide range in the Landmark or Region box located near the top left of the page and click on the Search button. See the image below.
Gbrowse will recognize a standard gene name as well as its synonyms. To find a b number, type Orf:bxxxx.
To find a nucleotide range, type: MG16655:xx..xx (where xx indicate the nucleotide positions).
Once you get to a particular location, you can use the Scroll/Zoom buttons to move along the chromosome or change magnification.
Tracks
The information in Gbrowse is displayed in tracks. The default tracks are: Overview, Region, and Details. Overview is a linear display of the entire genome with a vertical bar marking the location of the region being viewed. Region displays 50 kb on either side of the gene being viewed. The Details track xx
Other genomes
The default entry point for this installation of Gbrowse is the E. coli K-12 MG1655 genome. However, it can display other genomes, including those of E. coli K-12 W3110, conjugative plasmids F and R100, and a number of bacteriophage. To access one of these other genomes, choose from the scroll down menu in the Data Source box.