Download Sequence Databanks

How to...

The following tables give a list of descriptors that are available to configure your KoriBlast to install public databanks.

Their use is quite simple: click on the Download Descriptor link, save the file on your disk drive, switch to the Databank Manager of KoriBlast, click on the [Import] command and select the saved file; as soon as the descriptor has been imported into KoriBlast, you can delete that file.

Users contributions

Part of this content is contributed by our users: if you want to share some of your databank descriptors, simply contact our support by email.

An important reminder

Installing a databank may take some time because KoriBlast does a lot of operations to prepare the data: download files from (buzy) remote servers, uncrompress files, convert to Fasta, convert to Blast databanks, index features (annotated databanks only), etc. All of these steps are done automatically, but they are highly relying on the availability of public institute servers, as well as your web connection speed and computer performance.

Depending on the size of the databank, installation may take from a few minutes (PDB) up to two days or more (Genbank Core Nucleotide). It is advised to install large data set at nights (US time zone for NCBI, Europe time zone for EBI) or during week-ends.

Protein databanks

NameDescription Last updated Descriptor
Arabidopsis_thaliana_prot Tutorial example to show how to install the Arabidopsis thaliana proteome from GenBank/Genomes databank. March 07, 2012download
Genpept_PlantGenbank Plant (PLN) division only database (annotations + Blast).March 07, 2012download
PDB_proteins PDB Protein databank (Blast only). March 07, 2012download
Refseq_protein Refseq complete Protein databank (annotations + Blast). March 07, 2012download
Refseq_protein_RhesusMonkeyRefseq Rhesus Monkey Protein databank (annotations + Blast).March 07, 2012download
Refseq_protein_viridiplantaeRefseq Viridiplantae Protein databank (annotations + Blast).March 07, 2012download
Refseq_viral_proteinRefseq Viral Division Protein.March 07, 2012download
SwissProt_human Tutorial example to show how to create a Human subset of UniprotKB/SwissProt: data + blast banks March 07, 2012download
UniprotKB_RhesusMonkeyUniprotKB (Sw+TrEmbl) databank (annotations + Blast).March 07, 2012download
Uniprot_KBUniprotKB (Sw+TrEmbl) databank (annotations + Blast).March 07, 2012download
Uniprot_SwissProt UniprotKB/SwissProt databank (annotations + Blast). March 07, 2012download
Uniprot_TrEMBL UniprotKB/TrEMBL databank (annotations + Blast). March 07, 2012download
Yersinia_Angola_prot Tutorial example to show how to install the Yersinia pestis Angola proteome from GenBank/Genomes databank. March 07, 2012download
Yersinia_all_but_Angola_prot Tutorial example to show how to install all Yersinia pestis proteomes, excluding Angola, from GenBank/Genomes databank. March 07, 2012download

Nucleotide databanks

NameDescription Last updated Descriptor
EMBL_CoreNucleotideEMBL Core nucleotide database (annotations + Blast). STD EMBL division only.March 07, 2012download
Genbank_Bacteria Tutorial example to show how to install Genbank Bacteria (BCT) division only database (annotations + Blast). March 07, 2012download
Genbank_CoreNucleotideGenbank Core nucleotide database (annotations + Blast). All Genbank but EST, STS, GSS, HTG, HTC, CON and ENV.March 07, 2012download
Genbank_CoreNucleotide_blastGenbank Core nucleotide database (blast only). All Genbank but EST, STS, GSS, HTG, HTC, CON and ENV.March 07, 2012download
Genbank_PatentGenbank Patent Division (annotations + Blast).March 07, 2012download
Genbank_Patent_blastGenbank Patent Division (blast only).March 07, 2012download
Genbank_other_vertebrate_fullGenbank: Other vertebrate sequence Division.March 07, 2012download
Refseq_RNA_completeRefseq complete RNA databank (Blast + annotations).March 07, 2012download
Refseq_genomeRefseq complete Genome databank (annotations only).March 07, 2012download
Refseq_genome_completeRefseq complete Genome databank (Blast + annotations).March 07, 2012download
Refseq_genome_seqRefseq complete Genome databank (Blast only).March 07, 2012download
Refseq_rna_seqRefseq complete RNA databank (Blast only).March 07, 2012download
RhesusMonkey_GenomeRhesus Monkey assembled genome sequences (Blast only)March 07, 2012download

Biological classifications

NameDescription Last updated Descriptor
Enzyme Enzyme nomenclature March 07, 2012download
GeneOntology_terms Gene Ontology Terms March 07, 2012download
InterPro_terms InterPro Terms March 07, 2012download
NCBI_Taxonomy NCBI Taxonomy Scientific Terms and Tree Structure March 07, 2012download
Pfam_termsPfam TermsMarch 07, 2012download
 

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