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homeA popup window providing help for using the search form to the right  

MaizeGDB BLAST A popup window providing general help for using BLAST

Paste your sequence into the large text field and enter its name (optional). Press the "Run BLAST" button to perform a blast search against sequences in the selected database. To learn more about NCBI blast, click here.

POPCorn BLAST

Want to run blast simultaneously against multiple data sources:

ZeAlign

Want to create a track on the MaizeGDB Genome Browser for a large data set:

Note: You can also try the BLAST searches available at:
NCBI BLAST, for the latest sequence sets from GenBank!
A Mu Transposon Information Resource to find out whether your sequence has been tagged by Mu!
The MaizeGDB Cornsensus BLAST Page to search against the Cornsensus sequence set!
PANZEA BLAST, for evaluating diversity data

Data Sets To Choose FromA popup window providing help in choosing which blast program to use
Dataset Description Genome Browser
RefGen_v2 The maize pseudomolecules (B73 RefGen_v2) RefGen_v2 Browser
RefGen_v2 Super MaskedB73 RefGen_v2 sequences for repeats (Freeling Lab). RefGen_v2 Browser
RefGen_v1 The maize pseudomolecules (B73 RefGen_v1) RefGen_v1 Browser
RefGen_v1 MaskedB73 RefGen_v1 masked for repeats (Maizesequence.org). RefGen_v1 Browser
RefGen_v1 Super MaskedB73 RefGen_v1 sequences for repeats (Freeling Lab). RefGen_v1 Browser
BACs Maize BAC sequences. BAC-based Browser
EST Maize EST sequences. BAC-based Browser
GSS Maize GSS Sequences. No Browser data
MaizeNucleotide Other maize nucleotide sequences (Excluding EST and GSS). No Browser data

ProgramsA popup window providing help in choosing which blast program to use
blastn - Compares a nucleotide sequence to the nucleotide sequences in our database.
tblastn - Compares a protein sequence against the translated nucleotide sequences in our database.

MaizeGDB BLAST

A popup window providing help in choosing which blast program to use A popup window providing help in choosing which blast program to use A popup window providing help in determining the blast e-value
Speed up search results on RefGen_v1 and RefGen_v2:
   Maximum number of chromosome sequences to display:
   Maximum number of hits per chromosome to display:   

    (see an example)

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