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Sequence Research Tools

Click here for access to resources for the B73, Mo17, and Palomero project pages as well as various other sequence projects.

Find out more about the B73 Maize Sequencing Project here

Simple Sequence Search: This search form allows you to just enter basic info (such as accession number, GI number, or a part of the sequence title) to quickly retrieve the desired sequence.

(see a sample sequence query)

    (upper limit on results is 2,000 records)

Just as with accession numbers, you can retrieve sequences by GI number (try 12045510) or through the sequence description (try adh1)

This search can be executed on every page on the site by utilizing the form in the upper right corner. Choose "sequence" from the drop-down menu, enter your search term in the field, and hit return to find the sequence you're looking for.

MaizeGDB BLAST: The MaizeGDB BLAST tool.
GeneSeqer Gene Discovery Tool: Do a GeneSeqer search.
Mapped Sequence Search: Enter a list of sequence accession numbers and find out if they're mapped and on what maps.

About Clone Ordering: We are attempting to work out arrangements with groups that are making clones available, but many clones are simply unavailable. Please note that MaizeGDB does not ship or store clones, microarrays, library plates, or any other reagents; we merely hope to connect users to these resources when we are aware of their availability.

Zea mays B73 Genome information

Chromosome B73 RefGen_v1 B73 RefGen_v2 B73 RefGen_v3 Publication
Chromosome 1 GK000031.1 GK000031.2 GK000031.3 PubMed, MaizeGDB
Chromosome 2 GK000032.1 GK000032.2 GK000032.3 PubMed, MaizeGDB
Chromosome 3 GK000033.1 GK000033.2 GK000033.3 PubMed, MaizeGDB
Chromosome 4 CM000780.1 CM000780.2 CM000780.3 PubMed, MaizeGDB
Chromosome 5 CM000781.1 CM000781.2 CM000781.3 PubMed, MaizeGDB
Chromosome 6 CM000782.1 CM000782.2 CM000782.3 PubMed, MaizeGDB
Chromosome 7 GK000034.1 GK000034.2 GK000034.3 PubMed, MaizeGDB
Chromosome 8 CM000784.1 CM000784.2 CM000784.3 PubMed, MaizeGDB
Chromosome 9 CM000785.1 CM000785.2 CM000785.3 PubMed, MaizeGDB
Chromosome 10 CM000786.1 CM000786.2 CM000786.3 PubMed, MaizeGDB
Source: Zea mays ssp mays B73 inbred genome overview at GenBank (Project ID: 9514)

Details on Contigs

We store membership information for genomic and EST/cDNA contigs built at PlantGDB and for the maize gene index EST tentative consensus (TC) contigs built originally by TIGR and later by the Dana Farber Cancer Institute. If you look up a sequence using its GenBank identifier at MaizeGDB, on the sequence display page you will find links to PlantGDB and TC contigs that include that sequence.

The PlantGDB EST and cDNA assembly pipeline is described here. The PlantGDB GSS assembly is described here. The current version of the PlantGDB contigs is based on GenBank release 157a.

Discussion of Sequence Data for the General Public