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• The annotation may have changed between versions of the genome release. Currently we are using the TAIR10 release for the SeqViewer and many BLAST datasets.
• BAC lengths in GenBank differ from AGI BACS. Many of the BAC sequences used by the AGI were trimmed to remove overlaps whereas clones with the same name in GenBank are untrimmed and longer. Other AGI BACS were extended by TIGR, adding sequences from adjacent BACs for easier annotation of genes near BAC ends. On SeqViewer, the AGI BACs are called Assembly Units.
• Structural annotations may differ between GenBank and AGI sequences. TAIR builds gene models based on a combination of cDNA and EST sequences from GenBank. A gene's UTR may therefore be extended based on EST alignments even though cDNA is in relative terms truncated.

Related pages:
TAIR Genome Annotation Process
Search Locus History

Are ALL Arabidopsis genes annotated? My gene seems to be missing.

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• Go to Tools-> Bulk Data Retrieval->GO Annotations.
• Paste in or upload a list of locus identifiers for your genes (e.g. AT1G23030).
• Choose html or text for greater than 1000 genes.
• If you save the html file as text from your browser or save as text, you can open the file using spreadsheet software such as Microsoft Excel.

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Software/Analysis Tools

What are the specialized datasets available at TAIR for similarity searching (e.g. BLAST, PatMatch)?

TAIR's datasets include: AGI transcript, peptide, cds and gene sequences; introns only; insertion flank sequences; locus upstream and downstream sequences and more. For a full listing of the available data sets see: Datasets. These data sets are common to BLAST and PatMatch.

Can I obtain TAIR software/tools?

Yes you can.Related pages:
TAIR software and licensing information ; PatMatch Software

How do I interpret the error message I get when I submit a sequence?

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Please email a PDF/Word description of your job listing and/or URL to the posting in your website to curator@arabidopsis.org. We will put up the ad for no charge. Job postings are also routinely obtained as they are listed on the TAIR newsgroup. Your posting will appear on TAIR shortly after it is sent out to the newsgroup.Related Pages:The Arabidopsis Newsgroup ; Job Postings

How do I find out about job openings at TAIR?

Jobs at TAIR are posted in the TAIR news section.Related Pages:
TAIR news

New and updated data

How often is data updated in TAIR?

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