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.

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 Reference
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.
Database Name Source
=== Peptides ===  
All Gossypium Proteins A Combination of Proteins from NCBI, UniprotKB and Gossypium whole genome sequensing projects
GenBank Gossypium NR Sequences NCBI GenBank Gossypium NR Sequences, updated 2018-11-29
UniProtKB Gossypium Sequences UniProtKB Gossypium Sequences,  updated 2018-11-29
=== Nucleotides ===  
GenBank Gossypium Sequences NCBI GenBank Gossypium NT, EST, and GSS Sequences (WGS and RefSeq not included), updated 2018-11-29
CottonGen Markers CottonGen RAD, RFLP, SSR, SNP marker sequences, updated 2018-11-29
CottonGen RefTrans Gossypium species specific assemblies of filtered RNA-seq reads and unigenes performed by CottonGen, 2016-11-14
Gossypium Gene, CDS and Unigenes Gossypium genes, CDS, and unigenes from NCBI, PlantGDB, TIGR, cotton community, and whole genoe sequence projects
=== Whole Genomes ===  
Gossypium hirsutum HAU G. hirsutum (AD1) Genome HAU Assembly v1.0 & Annotation v1.0, [TM-1], 2018-12-03 new
Gossypium hirsutum JGI G. hirsutum (AD1) Genome JGI (Texas Interim release) Assembly v1.0 & Annotation v1.1, [TM-1], 2017-09-04
Gossypium hirsutum NBI G. hirsutum (AD1) Genome NAU-NBI Assembly v1.1 & Annotation v1.1, [TM-1], 2015-04-20
Gossypium hirsutum BGI G. hirsutum (AD1) Genome CGP-BGI Assembly v1.0 & Annotation v1.0, [TM-1], 2015-04-20
Gossypium barbadense HAU v2 G. barbadense (AD2) Genome NAU Assembly v2.0 & Annotation v1.0, [3-79], 2018-12-03 new
Gossypium barbadense HAU G. barbadense (AD2) Genome HAU Assembly v1.0 & Annotation v1.0, [3-79], 2016-03-25
Gossypium arboreum NCGR contigs & scaffolds only G. arboreum (A2) Genome NCGR shotgun sequences downloaded from NCBI, [AKA 8401], 2015-01-23
Gossypium arboreum BGI G. arboreum (A2) Genome BGI Assembly v2.0 & Annotation v1.0, [Shi Xi Ya 1], 2014-05-31
Gossypium raimondii JGI G. raimondii (D5) genome JGI assembly v2.0 annotation v2.1), [germplasm unknown], 2013-02-18
Gossypium raimondii BGI G. raimondii (D5) genome BGI-CGP draft assembly & annotation v1.0, [D5-3], 2012-01-11