BLAST


BLAST Search

Search for one or more of your sequences (using BLAST). First pick a query type (nucleotide or protein). You will be able to set search parameters on the next page. Choose the appropriate program based on the Query type and Target database type. Please click on the program name to view the search form. Video Tutorial

Query Type Database Type BLAST Program
Nucleotide Nucleotide blastn: Search a nucleotide database using a nucleotide query.
Protein blastx: Search protein database using a translated nucleotide query.
Protein Nucleotide tblastn: Search translated nucleotide database using a protein query.
Protein blastp: Search protein database using a protein query.
BLAST References
1. Altschul,S.F., Gish,W., Miller,W., Myers,E.W. and Lipman,D.J. (1990) Basic local alignment search tool. J. Mol. Biol., 215, 403–410.
2. Camacho,C., Coulouris,G., Avagyan,V., Ma,N., Papadopoulos,J., Bealer,K., and Madden T.L. (2009) BLAST+: architecture and applications. BMC Bioinformatics, 10:421, doi: 10.1186/1471-2105-10-421.

Description and source of BLAST databases

Database Name Source
NCBI ESTs Species specific ESTs from NCBI dbEST, downloaded 6/13/17
Unigene v1 and v2 Species specific assemblies of NCBI dbEST data performed by CSFL
CSFL RefTrans v1 and v2 Species specific assemblies of filtered RNA-seq reads and ESTs performed by CSFL; v1 (2015), v2 (2017)
Pisum sativum unigene WA1 Assembled by CSFL
Pisum sativum unigene Franssen  Franssen et al, 2011
   
For information on available genomes, see the JBrowse page