GenDBWiki/WebDocumentation/FAQs

FAQs for the GenDB Web Interface

1.) What is the difference between the 'Add New' and the 'Accept' button in the Annotation Dialog?

2.) How can I view an alignment?

3.) How do I search for a gene name like dnaA?

4.) ?

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Q1: What is the difference between the `Add New` and the `Accept` button in the Annotation Dialog?

Both buttons create a new annotation. Pressing the `Accept` button will automatically set the `status region` to `finished` and the `status function` to `annotated`. If you want to set a different status for a region you will have to use the `Add new` button.

Q2: How can I view an alignment?

In the list of observations for a selected CDS you can find entries for a tools. Click on 'Result' in the rightmost column to view the alignment. If you don't see any observations of this tool in your list you have to adjust the tool settings in the configuration dialog.

Q3: How do I search for a gene name like dnaA?

Open the search dialog, and enter the gene name into the field Genename (NOT Name, since this is the name of a region assigned automatically by GenDB). Select 'exact' if you know a gene name exactly like 'dnaA'. If you want to search for names with specific patterns select 'regexp'. Then you can use regular expressions, e.g. like

• `gyr.` searches for gyrA, gyr1, gyrB, ...
• `gyr.*` searches for gyrA, gyr1, gyrB, gyrAA, gyrAA, gyrABC, gyr123ABCD, ...