Linking to pages on the AtGDB website is both encouraged and appreciated. Described below are accepted methods for forming URIs to link to a variety of AtGDB content. See the "listing of parameter values" sidebar for a description of values for any CGI parameters found in these examples. Required parameters are shown in yellow. Optional parameters are shown in grey.

Listing of Parameter Values

chr

The chromosome

value(s)

(1-5)

Chromosome 1 thru 5

dbid

The genome assembly version

value(s)

0	TIGR/AGI v5 (19 Feb 2004)
1	TAIR v6.0 (20 April 2005)
2	TAIR v7.0 (20 April 2007)
3	TAIR v8.0 (15 March 2008)

id

The query identifier for a search

value(s)

Identifier

Any sequence identifier such as a gi number or a gene model name. Usage is dependent on context.

l_pos

The left base boundary of a chromosome region. Requires parameter chr.

value(s)

any number

Any valid base number for the chromosome represented by parameter 'chr'

r_pos

The right base boundary of a chromosome region. Requires parameter chr.

value(s)

any number

Any valid base number for the chromosome represented by parameter 'chr'

Linking to Genomic Context Regions

http://www.plantgdb.org/AtGDB/cgi-bin/findRegion.pl?
id=At2g42240&dbid=1

This URI directs to the genome context region containing the sequence or annotation identified in the required id parameter. The optional dbid parameter allows for the creation of URIs directed to previous (alternative) genome assembly versions.

http://www.plantgdb.org/AtGDB/cgi-bin/getRegion.pl?
chr=2&l_pos=17603963&r_pos=17606215&dbid=1

This URI directs to the genome context region contained between the start and end parameter values. The optional dbid parameter allows for the creation of URIs directed to regions of previous (alternative) genome assembly versions.

Linking to Data Source Records
(Annotations, ESTs, cDNAs, ...)

http://www.plantgdb.org/AtGDB/cgi-bin/findRecord.pl?
id=At2g42240&dbid=1

This URI directs to the record page for an individual data source. On the record page, you will find useful information and links relevant to this data object as well as the output of various pre-run utilities (such as the GeneSeqer spliced alignment of an expressed sequence data object with the genome) The optional dbid parameter allows for the creation of URIs directed to archival records from previous genome assembly versions.