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URI prefixes of the DBGET and link-only databases


DBGET LinkDB KEGG2

1. KEGG Databases in DBGET
All KEGG databases: http://www.kegg.jp/entry/
2. Other DBGET Databases
Database name Prefix
 RefSeq https://www.ncbi.nlm.nih.gov/nuccore/
 UniProt http://purl.uniprot.org/uniprot/
 SWISS-PROT http://www.genome.jp/dbget-bin/www_bget?sp:
 EGENOME http://www.genome.jp/dbget-bin/www_bget?egnm:
 PDB http://pdbj.org/rdf/
 EPD http://epd.vital-it.ch/cgi-bin/query_result.pl?out_format=NICE&from=-499&to=100&Entry_0=
 PROSITE http://prosite.expasy.org/
 Pfam http://pfam.sanger.ac.uk/family/
 NCBI-CDD https://www.ncbi.nlm.nih.gov/cdd/
 PMD http://spock.genes.nig.ac.jp/~pmd/cgi-bin/PMD/PMDentry.pl.cgi?
 AAindex http://www.genome.jp/dbget-bin/www_bget?aaindex:
 PDBSTR http://www.genome.jp/dbget-bin/www_bget?pdbstr:
 CarbBank http://www.genome.jp/dbget-bin/www_bget?ccsd:
 PROSITE(DOC) http://prosite.expasy.org/
3. Searchable Databases on the Web
Database name Prefix
 GenBank https://www.ncbi.nlm.nih.gov/nuccore/
 EMBL http://www.ebi.ac.uk/cgi-bin/emblfetch?style=html&id=
 NCBI-Gene https://www.ncbi.nlm.nih.gov/gene/
 UniGene https://www.ncbi.nlm.nih.gov/UniGene/clust.cgi?ORG=
 HGNC http://www.genenames.org/data/hgnc_data.php?hgnc_id=
 HMDB http://www.hmdb.ca/metabolites/
 GO http://amigo.geneontology.org/amigo/term/GO:
 BRC-DNA http://dna.brc.riken.jp/DataSheet/
 BRC-EPD http://epd.brc.riken.jp/DataSheet/
 InterPro http://www.ebi.ac.uk/interpro/entry/
 OMIM http://omim.org/entry/
 PubChem https://pubchem.ncbi.nlm.nih.gov/summary/summary.cgi?sid=
 ChEBI http://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:
 PDB-CCD http://www.ebi.ac.uk/pdbe-srv/pdbechem/chemicalCompound/show/
 LIPIDMAPS http://www.lipidmaps.org/data/LMSDRecord.php?LMID=
 LipidBank http://lipidbank.jp/cgi-bin/detail.cgi?id=
 KNApSAcK http://kanaya.naist.jp/knapsack_jsp/information.jsp?sname=C_ID&word=
 3DMET http://www.3dmet.dna.affrc.go.jp/cgi/show_data.php?acc=
 DrugBank http://www.drugbank.ca/drugs/
 LigandBox http://ligandbox.protein.osaka-u.ac.jp/ligandbox/cgi-bin/liginf.cgi?id=
 SIDER http://sideeffects.embl.de/drugs/
4. Link only Databases on the Web
Database name Prefix
 aphidbase http://webapps1.genouest.org/grs-1.6/grs?reportID=aphidbase_genome_report&objectID=
 araport http://www.araport.org/locus/
 asap https://asap.ahabs.wisc.edu/asap/feature_info.php?FeatureID=
 assembly https://www.ncbi.nlm.nih.gov/assembly/
 beebase http://hymenopteragenome.org/cgi-bin/gb2/gbrowse/bee_genome45/?name=
 beetlebase http://www.beetlebase.org/cgi-bin/report.cgi/BeetleBase3.gff3/?name=
 bgd-bta http://bovinegenome.org/genepages/btau40/genes/
 biosample https://www.ncbi.nlm.nih.gov/biosample/?term=
 BioSystems https://www.ncbi.nlm.nih.gov/biosystems/
 brenda http://www.brenda-enzymes.info/php/result_flat.php4?ecno=
 bsorf http://bacillus.genome.jp/cgi-bin/BSORF_data_view.pl?ACCESSION=
 cambridge http://jblseqdat.bioc.cam.ac.uk/gnmweb/ggb/gbrowse_details/se?class=Gene;name=
 cazy http://www.cazy.org/fam/
 cgnc http://birdgenenames.org/cgnc/GeneReport?id=
 chembl https://www.ebi.ac.uk/chembldb/compound/inspect/
 chembl-up https://www.ebi.ac.uk/chembldb/target/inspect/
 cog https://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=
 DailyMed https://dailymed.nlm.nih.gov/dailymed/lookup.cfm?setid=
 dictybase http://dictybase.org/gene/
 ebi-ena http://www.ebi.ac.uk/ena/data/view/
 ecocyc http://biocyc.org/ecoli/new-image?object=
 ensembl-up http://www.ensembl.org/id/
 ensemblgenomes-gn http://ensemblgenomes.org/id/
 ensemblgenomes-tr http://ensemblgenomes.org/id/
 flybase http://flybase.org/reports/
 genedb http://www.genedb.org/gene/
 genoscope http://www.genoscope.cns.fr/cgi-bin/ggb/paramecie/geneView?src=vitis&name=
 GlycoEpitope http://www.glycoepitope.jp/epitopes/
 GlycomeDB http://www.glycome-db.org/database/showStructure.action?glycomeId=
 hsdb https://toxnet.nlm.nih.gov/cgi-bin/sis/search/r?dbs+hsdb:@term+@na+
 imgt http://imgt.org/IMGT_GENE-DB/GENElect?species=Homo+sapiens&query=2+
 jcggdb http://jcggdb.jp/idb/jcggdb/
 jgi http://genome.jgi-psf.org/cgi-bin/jgrs?id=
 maizegdb http://www.maizegdb.org/cgi-bin/displaylocusrecord.cgi?id=
 maizegdb-up http://www.maizegdb.org/cgi-bin/id_search.cgi?id=
 massbank http://www.massbank.jp/jsp/FwdRecord.jsp?type=disp&id=
 mgd http://www.informatics.jax.org/marker/MGI:
 mgi-mmu http://www.informatics.jax.org/marker/MGI:
 microbedb http://microbedb.jp/MDB/sample/?sampleid=
 mirbase http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=
 nagahama-h http://dbcls.nagahama-i-bio.ac.jp/health/modules/stdb/index.php?action=card2&tbl_id=2&perpage=2&start=
 nagahama-s http://dbcls.nagahama-i-bio.ac.jp/xoops/modules/stdb/index.php?action=card2&tbl_id=2&perpage=2&start=
 nasoniabase http://hymenopteragenome.org/cgi-bin/gbrowse/nasonia10_scaffold/?name=
 ncbi-gi https://www.ncbi.nlm.nih.gov/protein/
 ncbi-proteinid https://www.ncbi.nlm.nih.gov/protein/
 nikkaji http://jglobal.jst.go.jp/en/redirect?Nikkaji_No=
 nite http://www.bio.nite.go.jp/dogan/feature/view/
 oc http://www.genome.jp/tools-bin/ocv?entry=
 orcae http://bioinformatics.psb.ugent.be/orcae/annotation/Ostta/current/
 oryzabase http://www.shigen.nig.ac.jp/rice/oryzabaseV4/gene/detail/
 pangaea http://www.pangaea.de/search?All&q=
 pasteur-up http://genodb.pasteur.fr/cgi-bin/WebObjects/GenoList.woa/wa/goToGene?accNum=
 pathogenesis http://www.pseudomonas.com/getAnnotation.do?locusID=
 pgdbj http://pgdbj.jp/od/search.php?db=seq&do=gids&id=
 pharos https://pharos.nih.gov/idg/targets/
 plasmodb http://plasmodb.org/plasmodb/servlet/sv?page=gene&source_id=
 ProDom http://prodom.prabi.fr/prodom/current/cgi-bin/request.pl?question=SPTR&query=
 project https://www.ncbi.nlm.nih.gov/bioproject/
 pronit http://gibk26.bio.kyutech.ac.jp/cgi-bin/jouhou/pronit/new/bind_entry.pl?ENTRY=
 protherm http://gibk26.bio.kyutech.ac.jp/cgi-bin/jouhou/protherm/pp_entry.pl?ENTRY=
 PubMed https://www.ncbi.nlm.nih.gov/pubmed/
 rap-db http://rapdb.dna.affrc.go.jp/viewer/gene_detail/irgsp1?name=
 rgd http://rgd.mcw.edu/tools/genes/genes_view.cgi?id=
 sabio-rk http://sabiork.h-its.org/newSearch?q=sabioreactionid:
 sabio-rk-up http://sabiork.h-its.org/newSearch?q=UniProtKB_AC:
 scop http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?pdb=
 sgd-up http://www.yeastgenome.org/cgi-bin/locus.fpl?dbid=
 shibase_china http://www.mgc.ac.cn/cgi-bin/ShiBASE/ShiBASE_query.cgi?synonym=
 smart http://smart.embl-heidelberg.de/smart/do_annotation.pl?ACC=
 tair http://arabidopsis.org/servlets/TairObject?type=locus&name=
 tax https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=
 tc http://www.tcdb.org/search/result.php?tc=
 tgd http://ciliate.org/index.php/feature/details/
 tuberculist http://tuberculist.epfl.ch/quicksearch.php?gene+name=
 umbbd-bt http://umbbd.ethz.ch/servlets/rule.jsp?rule=
 umbbd-ec http://umbbd.ethz.ch/servlets/pageservlet?ptype=e&ECcode=
 umbbd-rn http://umbbd.ethz.ch/servlets/pageservlet?ptype=r&reacID=
 unam_a http://kinich.cifn.unam.mx:8850/retlidb/db_queries.print_gene?v_gene_id=
 unam_b http://kinich.cifn.unam.mx:8850/retlidb/db_queries.print_gene?v_gene_id=
 unam_c http://kinich.cifn.unam.mx:8850/retlidb/db_queries.print_gene?v_gene_id=
 unam_e http://kinich.cifn.unam.mx:8850/retlidb/db_queries.print_gene?v_gene_id=
 unam_f http://kinich.cifn.unam.mx:8850/retlidb/db_queries.print_gene?v_gene_id=
 vectorbase http://www.vectorbase.org/Genome/BRCGene/?gene=
 vega http://vega.sanger.ac.uk/id/
 wormbase http://www.wormbase.org/db/gene/gene?name=
 xenbase http://www.xenbase.org/gene/showgene.do?method=display&geneId=
 zfin http://zfin.org/cgi-bin/webdriver?MIval=aa-markerview.apg&OID=
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