Skip to content

Databases

This page lists the databases currently provided in Job Dispatcher.

Database ID Name Description URL
UNIPROT UniProtKB Universal Protein Resource KnowledgeBase https://www.uniprot.org/
SP and SW SwissProt UniProtKB/SwissProt https://www.uniprot.org/
TR TrEMBL UniProtKB/TrEMBL https://www.uniprot.org/
TR (See list of available below) UniProt Taxonomy Divisions UniProtKB Taxonomic Divisions https://www.uniprot.org/
TR UniProt RefProt + SwissProt UniProtKB Reference Proteomes plus SwissProt https://www.uniprot.org/
UR100 UniRef UniProt Reference Clusters 100% https://www.uniprot.org/help/uniref
UR090 UniRef UniProt Reference Clusters 90% https://www.uniprot.org/help/uniref
UR050 UniRef UniProt Reference Clusters 50% https://www.uniprot.org/help/uniref
UNIPARC UniParc UniProt Archive https://www.uniprot.org/help/uniparc
UNIMES UniMes UniProt Metagenomic and Environmental Sequences https://www.uniprot.org/help/unimes
EM_* (see list of available below) ENA ENA (previously EMBL database) https://www.ebi.ac.uk/ena
EM_CDS ENA coding ENA coding sequences https://www.ebi.ac.uk/ena
EM_NCS ENA non-coding ENA non-coding sequences https://www.ebi.ac.uk/ena
EM_RRNA ENA rRNA ENA ribossomal RNA sequences https://www.ebi.ac.uk/ena
EM_EXPCON ENA expcon ENA expanded contig sequences https://www.ebi.ac.uk/ena
EM_GEO ENA geospatial ENA geospatial sequnces https://www.ebi.ac.uk/ena
EM_BCD ENA barcode ENA barcode sequences https://www.ebi.ac.uk/ena
CDP CDP COVID Data Portal https://www.covid19dataportal.org/
EG Ensembl Genomes Ensembl Genomes https://ensemblgenomes.org/
WBS WormBase Parasite WormBase Parasite https://parasite.wormbase.org/index.html
UniVec UniVec NCBI UniVec Database https://www.ncbi.nlm.nih.gov/tools/vecscreen/univec/
PRINTS PRINTS Fingerprints Database https://www.ebi.ac.uk/interpro/
EBI-EP Enzyme Portal Enzyme Portal Sequences https://www.ebi.ac.uk/enzymeportal/
INTACT IntAct IntAct Interactors https://www.ebi.ac.uk/intact/
CHEMBL ChEMBL ChEMBL Targets https://www.ebi.ac.uk/chembl/
PDB PDBe AA Protein Data Bank in Europe amino acid sequences https://www.ebi.ac.uk/pdbe/
PDB PDBe NA Protein Data Bank in Europe nucleotide sequences https://www.ebi.ac.uk/pdbe/
AFDB AlphaFold DB AlphaFold Protein Structure Database https://alphafold.ebi.ac.uk/
IPD-KIRcds, IPD-KIRgen and IPD-KIRpro IPD KIR Immuno Polymorphism Database-Killer-cell Immunoglobulin-like Receptors https://www.ebi.ac.uk/ipd/kir/
IPD-NHKIRcds, IPD-NHKIRgen and IPD-NHKIRpro IPD-NHKIR Non-human Killer-cell Immunoglobulin-like Receptors http://www.ebi.ac.uk/ipd/nhkir/
IPD-MHCcds, IPD-MHCgen and IPD-MHCpro IPD MHC Immuno Polymorphism Database-Major Histocompatibility Complex https://www.ebi.ac.uk/ipd/mhc/
IMGTHLAcds, IMGTHLAgen and IMGTHLApro IMGT/HLA Immuno Polymorphism Database-International Immunogenetics project/Human Leucocyte Antigen https://www.ebi.ac.uk/ipd/imgt/hla/
IMGTLIGM IMGT/LIGM Immuno Polymorphism Database Laboratoire d'ImmunoGénétique Moléculaire http://www.imgt.org/IMGTinformation/LIGM.php
MPRO MEROPS MEROPS Peptidases Database - Sequences from the MEROPS scan dataset https://www.ebi.ac.uk/merops/
MPEP MEROPS MEROPS Peptidases Database - Sequences from the peptidase or inhibitor domain sequence only https://www.ebi.ac.uk/merops/
MP MEROPS MEROPS Peptidases Database - Sequences from the full MEROPS collection https://www.ebi.ac.uk/merops/
EPOP EPO EPO Patent Protein Sequences https://www.ebi.ac.uk/patentdata/nr
EPOPNR EPO EPO Patent Protein Sequences Non Redundant https://www.ebi.ac.uk/patentdata/nr
JPOP JPO JPO Patent Protein Sequences https://www.ebi.ac.uk/patentdata/nr
JPOPNR JPO JPO Patent Protein Sequences Non Redundant https://www.ebi.ac.uk/patentdata/nr
KPOP KIPO KIPO Patent Protein Sequences https://www.ebi.ac.uk/patentdata/nr
KPOPNR KIPO KIPO Patent Protein Sequences Non Redundant https://www.ebi.ac.uk/patentdata/nr
USPOP USPTO USPTO Patent Protein Sequences https://www.ebi.ac.uk/patentdata/nr
USPOPNR USPTO USPTO Patent Protein Sequences Non Redundant https://www.ebi.ac.uk/patentdata/nr
NRNL1 NR Non-redundant patent nucleotides level-1 https://www.ebi.ac.uk/patentdata/nr
NRNL2 NR Non-redundant patent nucleotides level-1 https://www.ebi.ac.uk/patentdata/nr
NRPL1 NR Non-redundant patent proteins level-1 https://www.ebi.ac.uk/patentdata/nr
NRPL2 NR Non-redundant patent proteins level-2 https://www.ebi.ac.uk/patentdata/nr

UniProtKB taxonomic divisions

Database Description
TR Archaea
TR Arthropoda
TR Bacteria
TR Complete Microbial Proteomes
TR Covid19
TR Enzyme
TR Eukaryota
TR Fungi
TR Human
TR Mammals
TR Nematoda
TR PDB
TR Reference Proteomes
TR Rodents
TR Vertebrates
TR Viridiplantae
TR Viruses

ENA data classes and taxonomic divisions

Database Description
EM_BCD Barcode
EM_CON Contigs - Temporarily unavailable
EM_CDS Coding Sequences
EM_ENV Express Sequence Tag (EST) Environmental
EM_EST All Express Sequence Tag (ESTs)
EM_EXPCON Expanded Contigs - Temporarily unavailable
EM_GEO Geospatial
EM_GSS All GSSs (Genome Survey Sequence)
EM_HTG All HTCs (High-Throughput cDNA)
EM_HTG All HTGs (High-Throughput Genome sequencing)
EM_NCR Non-Coding RNAs
EM_PAT All Patents
EM_ENV Standard Environmental
EM_FUN Standard Fungi
EM_HUM Standard Human
EM_INV Standard Invertebrates
EM_OM Standard Other Mammals
EM_MUS Standard Mouse
EM_PH Standard Phage
EM_PL Standard Plants
EM_PRO Standard Prokaryotes
EM_RO Standard Rodent
EM_SY Standard Synthetic
EM_TGN Standard Transgenic
EM_UN Standard Unclassified
EM_VI Standard Virus
EM_OV Standard Other Vertebrates
EM_STS All STSs (Sequence Tagged Site)
EM_TPA All TPAs (Third Party Annotation)
EM_TSA All TSAs (Transcriptome Shotgun Assembly)
EM_TLS All TLSs (Targeted Locus Study)
EM_VEC Vectores
EM_WGS All WGSs (Whole Genome Sequencing) - Temporarily unavailable