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. 2003 Jun;132(2):461-8.
doi: 10.1104/pp.103.022251.

Annotation of the Arabidopsis genome

Jennifer R Wortman  1 , Brian J Haas, Linda I Hannick, Roger K Smith Jr, Rama Maiti, Catherine M Ronning, Agnes P Chan, Chunhui Yu, Mulu Ayele, Catherine A Whitelaw, Owen R White, Christopher D Town
Affiliations

Annotation of the Arabidopsis genome

Jennifer R Wortman et al. Plant Physiol. 2003 Jun.
No abstract available

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Figures

Figure 1.
Figure 1.
A typical TIGR gene detail page is shown. At the top, locus and the original annotation group are shown. In this section, genomic, gene, and gene product sequence can be obtained, as well as additional information about the BAC genomic region. The “Gene Identification” section contains gene identifiers, gene product name, annotation status, and comments included in the GenBank release. Links to TAIR and MIPS gene annotation are also provided. GO assignments (if made) and GO evidence are shown in the “Gene Ontology Classification” section. Links to the GO graph for assigned terms are also provided. The “Attributes” section shows features of the gene product, and a cartoon representing the gene structure is shown in the “Gene Structure” section. Selecting the gene structure cartoon opens a page displaying the evidence supporting the gene structure. In the “Protein Features” section, an image of various types of domain evidence is displayed aligned to the gene product. Domain evidence includes Pfam, Interpro, and Prosite domains, as well as putative Arabidopsis-specific domains, which are generated in-house. Selecting a particular domain opens a page displaying more information about the domain as well as other Arabidopsis gene products that share the domain. Trusted HMM/Pfam domain hits to the gene product are displayed in the HMM/Pfam hits section. Finally, the top Blastp search results are shown in the “Blastp Searches” section. The Blast alignments can be obtained by selecting “View Blastp Searches.” In addition to Blast, alignments calculated using Blast Extend Repraze (BER), a modified Smith Waterman algorithm, can also be obtained. Users can access the gene detail page from the Arabidopsis Annotation Web site (http://www.tigr.org/tdb/e2k1/ath1/ath1.shtml) using BAC clone names, original BAC loci, AGI identifiers, text-based gene names, or sequence searches. Because this page is constantly undergoing revisions, changes and/or additions may be made in the future.
See this image and copyright information in PMC

References

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