!version: $Revision: 1.1 $
!date: $Date: 2003/03/19 19:48:29 $
!Title: POC-DBXref 
!Plant Ontology Consortium
!www.plantontology.org
!created by : Pankaj Jaiswal

Syntax for database cross-references either within nodes in an ontology or within other PO documents, 
e.g. PO.defs, will be standardized and that, as far as possible, we use the  abbreviations used by 
the NCBI. See: http://www.ncbi.nlm.nih.gov/projects/collab/db_xref.html. 
The syntax would then be: Database_Abbreviation:identifier (as recently proposed/adopted by GO). 



abbreviation: PO
definition:Plant Ontology Consortium
example:PO
generic_url:http://www.plantontology.org
url_syntax:


abbreviation: AGI_LocusCode
database: Arabidopsis Genome Initiative (TAIR, TIGR, MIPS)
object: Locus identifier
example: AGI_LocusCode:At2g17950
generic_url: http://www.arabidopsis.org
url_syntax: http://mips.gsf.de/cgi-bin/proj/thal/search_gene?code=
url_syntax: http://www.tigr.org/tigr-scripts/euk_manatee/shared/ORF_infopage.cgi?db=ath1&orf=
url_syntax: http://arabidopsis.org/servlets/TairObject?type=locus&name=
example_url: http://mips.gsf.de/cgi-bin/proj/thal/search_gene?code=At2g17950
example_url: http://www.tigr.org/tigr-scripts/euk_manatee/shared/ORF_infopage.cgi?db=ath1&orf=At2g17950
example_url: http://arabidopsis.org/servlets/TairObject?type=locus&name=At2g17950

abbreviation: bib
database: AGRICOLA
object: call number
example: MARC TAG 016 or bib=0000-05160
generic_url: http://www.nal.usda.gov/ag98/

abbreviation: CGEN
database: Compugen Gene Ontology Gene Association Data.
object: Identifier.
example: CGEN:PrID131022
generic_url: !{see GO/doc/Compugen.README}
url_syntax: !{see GO/doc/Compugen.README}

abbreviation: CGSC
database: CGSC: E.coli Genetic Stock Center.
object: Gene symbol.
example: CGSC:rbsK
generic_url: http://cgsc.biology.yale.edu/
example_url: http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/315

abbreviation: DDB
database: DictyBase
object: Accession ID
example: DDB0001836
generic_url: http://dictybase.org
url_syntax: http://dictybase.org/db/cgi-bin/dictyBase/locus.pl?locus=
url_example: http://dictybase.org/db/cgi-bin/dictyBase/locus.pl?locus=DDB0001836

abbreviation: DDB_LOCUS
database: DictyBase
object: Locus
example: mlcE
generic_url: http://dictybase.org
url_syntax: http://dictybase.org/db/cgi-bin/dictyBase/locus.pl?locus=
url_example: http://dictybase.org/db/cgi-bin/dictyBase/locus.pl?locus=mlce

abbreviation: EC
database: The Enzyme Commission.
example: EC:1.1.1.1
generic_url: http://www.chem.qmw.ac.uk/iubmb/enzyme/
url_syntax:
url_example: http://www.chem.qmw.ac.uk/iubmb/enzyme/EC1/1/1/1.html

abbreviation: EcoCyc
database: The Encylopedia of E. coli metabolism.
object: Pathway identifier.
example: EcoCyc:P2-PWY
generic_url: http://ecocyc.org/
url_syntax: http://malibu.ai.sri.com:1555/ECOLI/new-image?type=PATHWAY&object=?
url_example: http://malibu.ai.sri.com:1555/ECOLI/new-image?type=PATHWAY&object=P2-PWY

abbreviation: ECOGENE
database: CGSC: E.coli Genetic Stock Center.
object: EcoGene Accession Number.
example: ECOGENE:EG10818
generic_url: http://cgsc.biology.yale.edu/
example_url: http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/315

abbreviation: ECOGENE_G
database: CGSC: E.coli Genetic Stock Center.
object: EcoGene Primary Gene Name.
example: ECOGENE_G:deoC
generic_url: http://cgsc.biology.yale.edu/

abbreviation: EMBL
database: EMBL-EBI International Nucleotide Sequence Data Library/DDBJ/GenBank.
object: Sequence accession number.
synonym: GB
synonym: DDBJ
example: EMBL:AA816246
generic_url: http://www.ebi.ac.uk/embl/
url_syntax: http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?cmd=Retrieve&db=nucleotide&list_uids=10727410&dopt=GenBank

abbreviation: ENSEMBL
database: Database of automatically annotated genomic data.
object: Identifier.
example: ENSEMBL:ENSP00000265949
generic_url: http://www.ensembl.org/
url_syntax:http://www.ensembl.org/perl/protview?peptide=
example_url: http://www.ensembl.org/perl/protview?peptide=ENSP00000265949

abbreviation: ENZYME
database: The Swiss Institute of Bioinformatics database of Enzymes.
object: Identifier.
example: ENZYME:EC 1.1.1.1
generic_url: http://www.expasy.ch/
url_syntax: http://www.expasy.ch/cgi-bin/nicezyme.pl?
url_example: http://www.expasy.ch/cgi-bin/nicezyme.pl?1.1.1.1

abbreviation: FB
database: FlyBase.
object: Gene identifier.
note: [NCBI use FLYBASE]
example: FB:FBgn0000024
generic_url: http://fly.ebi.ac.uk:7081/
generic_url: http://flybase.bio.indiana.edu/
url_syntax: http://fly.ebi.ac.uk:7081/.bin/fbidq.html?
url_syntax: http://flybase.bio.indiana.edu/.bin/fbidq.html?
url_example: http://fly.ebi.ac.uk:7081/.bin/fbidq.html?FBgn0000055

abbreviation: FLYBASE
database: FlyBase.
object: Gene symbol.
example: FLYBASE:Adh
generic_url: http://fly.ebi.ac.uk:7081/
generic_url: http://flybase.bio.indiana.edu/
url_syntax: http://flybase.bio.indiana.edu/.bin/fbidq.html?
url_syntax: http://fly.ebi.ac.uk:7081/.bin/fbidq.html?

abbreviation: GDB
database: Human Genome Database.
object: Accession number.
example: GDB:306600
generic_url: http://www.gdb.org/
url_syntax:
url_example: http://www.gdb.org/gdb-bin/genera/accno?accessionNum=GDB:306600

abbreviation: GeneDB_Spombe
shorthand_name: Spombe
database: GeneDB_Spombe.
object: Gene identifier.
example: GeneDB_Spombe:SPAC890.04C
generic_url: http://www.genedb.org/pombe
url_syntax: http://www.genedb.org/genedb/Search?organism=pombe&name=
url_example: http://www.genedb.org/genedb/Search?organism=pombe&name=SPAC890.04C

abbreviation: GeneDB_Gmorsitans
shorthand_name: Tsetse
database: GeneDB_Gmorsitans.
object: Gene identifier.
example: GeneDB_Gmorsitans:Gmm-0142
generic_url: http://www.genedb.org/glossina
url_syntax: http://www.genedb.org/genedb/Search?organism=glossina&name=
url_example: http://www.genedb.org/genedb/Search?organism=glossina&name=Gmm-0142

abbreviation: GeneDB_Lmajor
shorthand_name: Lmajor
database: GeneDB_Lmajor.
object: Gene identifier.
example: GeneDB_Lmajor:LM5.32
generic_url: http://www.genedb.org/leish
url_syntax: http://www.genedb.org/genedb/Search?organism=leish&name=
url_example: http://www.genedb.org/genedb/Search?organism=leish&name=LM5.32

abbreviation: GeneDB_Pfalciparum
shorthand_name: Pfalciparum
database: GeneDB_Pfalciparum.
object: Gene identifier.
example: GeneDB_Pfalciparum:PFD0755c
generic_url: http://www.genedb.org/malaria
url_syntax: http://www.genedb.org/genedb/Search?organism=malaria&name=
url_example: http://www.genedb.org/genedb/Search?organism=malaria&name=PFD0755c

abbreviation: GeneDB_Tbrucei
shorthand_name: Tbrucei
database: GeneDB_Tbrucei.
object: Gene identifier.
example: GeneDB_Tbrucei:Tb927.1.5250
generic_url: http://www.genedb.org/tryp
url_syntax: http://www.genedb.org/genedb/Search?organism=tryp&name=
url_example: http://www.genedb.org/genedb/Search?organism=tryp&name=Tb927.1.5250

abbreviation: GenProtEC
database: GenProtEC E. coli genome and proteome database.
generic_url: http://genprotec.mbl.edu/

abbreviation: GO
database: Gene Ontology Database.
object: Identifier.
example: GO:1234567
generic_url: http://www.geneontology.org/
url_syntax:

abbreviation: GO_REF
database: Gene Ontology Database references.
object: Reference (points to web page).
example: GO_REF:nd
generic_url: http://www.geneontology.org/#ref
url_example: http://www.geneontology.org/doc/GO.ndref.html

! note: the following three entries, GOA:interpro, GOA:spec, and
! GOA:spkw, will be moved to the GO_REF dataset at some point; in the
! meantime, they are here so they'll be documented somewhere

abbreviation: GOA:interpro
database: Gene Ontology Annotation at EBI annotations from InterPro to GO mapping.
object: Reference (points to web page).
url_example: http://www.geneontology.org/goa.interpro.html

abbreviation: GOA:spec
database: Gene Ontology Annotation at EBI annotations from EC mapping.
object: Reference (points to web page).
url_example: http://www.geneontology.org/goa.spec.html

abbreviation: GOA:spkw
database: Gene Ontology Annotation at EBI annotations from keyword mapping.
object: Reference (points to web page).
url_example: http://www.geneontology.org/goa.spkw.html

abbreviation: GOC:unpublished
database: Temporary reference for unpublished papers.
object: Doesn't link anywhere yet.

abbreviation: GR
database: Gramene: A Comparative Mapping Resource for Grains.
object: Protein
example: GR:P93436
generic_url: http://www.gramene.org/
url_syntax:  http://www.gramene.org/perl/protein_search?acc=Accession number 
example: http://www.gramene.org/perl/protein_search?acc=P93436 

abbreviation: GR_REF
database: Gramene: A Comparative Mapping Resource for Grains.
object: Reference
example: GR_REF:659
generic_url: http://www.gramene.org/
url_syntax: http://www.gramene.org/perl/pub_search?ref_id=ID number
example: http://www.gramene.org/perl/pub_search?ref_id=659

abbreviation: HUGO
database: Human Genome Organisation
object:
example:
generic_url: http://www.gene.ucl.ac.uk/hugo/
url_syntax:

abbreviation: HGNC
database: HUGO Gene Nomenclature Committee.
object: Gene symbol.
example: HGNC:HNRPK
generic_url: http://www.gene.ucl.ac.uk/nomenclature/
url_example: http://www.gene.ucl.ac.uk/cgi-bin/nomenclature/searchgenes.pl?field=symbol&anchor=begins&match=HNRPK&symbol_search=Search&page_size=25&limit=1000&.cgifields=limit&.cgifields=page_size

abbreviation: IMGT_HLA
definition: Immunogenetics database, human MHC.
example: IMGT_HLA:HLA00031
generic_url: http://www.ebi.ac.uk/imgt/hla
url_syntax:

abbreviation: IMGT_LIGM
definition: Immunogenetics database, immunoglobulins and T-cell receptors.
example: IMGT_LIGM:U03895
generic_url: http://imgt.cines.fr
url_syntax:

abbreviation: IND
database: AGRICOLA
object: call number
example: IND84014403
generic_url: http://agricola.cos.com/

abbreviation: InterPro
database: The InterPro database of protein domains and motifs.
object: 
synonym: INTERPRO
example: 
generic_url: http://www.ebi.ac.uk/interpro/
url_syntax:

abbreviation: IPI
database: International Protein Index.
object: Identifier.Version
example: IPI:IPI00000005.1
generic_url: http://www.ebi.ac.uk/IPI/IPIhelp.html

abbreviation: ISBN
database: International Standard Book Number.
object: Identifier.
example: ISBN:0781702534
generic_url: http://isbntools.com/
url_syntax: http://my.linkbaton.com/get?lbCC=q&nC=q&genre=book&item=
url_example: http://my.linkbaton.com/get?lbCC=q&nC=q&genre=book&item=0781702534

abbreviation: IUPHAR
database: The IUPHAR Compendium of Receptor Characterization and Classification.
object: Receptor code.
example: IUPHAR:2.1.CBD

abbreviation: KEGG
database: Kyoto Encyclopedia of Genes and Genomes.
generic_url: http://www.genome.ad.jp/kegg/

abbreviation: KEGG_PATHWAY
database: KEGG Pathways Database.
object: Pathway.
example: KEGG_PATHWAY:ot00020
generic_url: http://www.genome.ad.jp/kegg/docs/upd_pathway.html
url_syntax: http://www.genome.ad.jp/dbget-bin/www_bget?path:
url_example: http://www.genome.ad.jp/dbget-bin/www_bget?path:ot00020

abbreviation: LIGAND
database: KEGG LIGAND Database.
object: Enzyme or Compound.
example: LIGAND:C00577
example: LIGAND:EC 1.1.1.1
url_syntax: http://www.genome.ad.jp/dbget-bin/www_bget?ec:
url_syntax: http://www.genome.ad.jp/dbget-bin/www_bget?cpd:
generic_url: http://www.genome.ad.jp/kegg/docs/upd_ligand.html#ENZYME
generic_url: http://www.genome.ad.jp/kegg/docs/upd_ligand.html#COMPOUND
url_example: http://www.genome.ad.jp/dbget-bin/www_bget?ligand+1.1.1.1
url_example: http://www.genome.ad.jp/dbget-bin/www_bget?cpd:C00577

abbreviation: LocusID
database: NCBI LocusLink ID.
object: Identifier.
example: LocusID:3195
generic_url: http://www.ncbi.nlm.nih.gov/
url_syntax:
url_example: http://www.ncbi.nlm.nih.gov:80/LocusLink/LocRpt.cgi?l=3195

abbreviation: MaizeDB
database: Maize Genome Database.
object: Canonical name of gene.
example: MaizeDB:apb1
generic_url: http://www.agron.missouri.edu/
url_syntax:

abbreviation: MaizeDBID
database: Maize Genome Database.
object: Identifier.
example: MaizeDBID:12008
generic_url: http://www.agron.missouri.edu/
url_syntax:

abbreviation: MEDLINE
database: The Medline literature database.
object: Identifier.
example: MEDLINE:20572430
generic_url:
url_syntax:

abbreviation: MetaCyc
database: The Metabolic Encyclopedia of metabolic and other pathways.
object: Pathway identifier.
example: MetaCyc:GLUTDEG-PWY
generic_url: http://ecocyc.org/ecocyc/metacyc.html?
url_syntax: http://malibu.ai.sri.com:1555//META/NEW-IMAGE?type=PATHWAY&object=?
url_example: http://malibu.ai.sri.com:1555//META/NEW-IMAGE?type=PATHWAY&object=GLUTDEG-PWY

abbreviation: MGD
database: Mouse Genome Database.
object: Gene symbol.
example: MGD:Adcy9
generic_url: http://www.informatics.jax.org/
url_syntax: http://www.informatics.jax.org/searches/marker.cgi?

abbreviation: MGI
database: Mouse Genome Informatics.
object: Accession number.
example: MGI:80863
generic_url: http://www.informatics.jax.org/
url_syntax:

abbreviation: MO
database: The MGED Ontology
object: ontology term
example: MO:Action
generic_url: http://mged.sourceforge.net/ontologies/MGEDontology.php
url_syntax: http://mged.sourceforge.net/ontologies/MGEDontology.php#term
url_example: http://mged.sourceforge.net/ontologies/MGEDontology.php#Action

abbreviation: NAL
database: AGRICOLA
object: call number
example: NAL:TP248.2 P76 v.14
generic_url: http://www.nal.usda.gov/ag98/ag98.html

abbreviation: NASC_code
database: Nottingham Arabidopsis Stock Centre Seeds Database
object: NASC code Identifier
example: NASC_code:N3371
generic_url: http://arabidopsis.info
url_syntax: http://seeds.nottingham.ac.uk/NASC/stockatidb.lasso?code=
example_url: http://seeds.nottingham.ac.uk/NASC/stockatidb.lasso?code=N3371

abbreviation: NCBI
database: National Center for Biotechnology Information, Bethesda.
object: Prefix.
example: NCBI_gi
generic_url: http://www.ncbi.nlm.nih.gov/

abbreviation: NCBI_gi
database: NCBI databases.
object: Identifier.
example: NCBI_gi:10727410
generic_url: http://www.ncbi.nlm.nih.gov/
url_syntax:
url_example: http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?cmd=Retrieve&db=nucleotide&list_uids=10727410&dopt=GenBank

abbreviation: NCBI_NM
database: NCBI RefSeq.
object: mRNA identifier.
example: NCBI_NM:123456
generic_url: http://www.ncbi.nlm.nih.gov/
url_syntax:

abbreviation: NCBI_NP
database: NCBI RefSeq.
object: Protein identifier.
example: NCBI_NP:123456
generic_url: http://www.ncbi.nlm.nih.gov/
url_syntax:

abbreviation: OMIM
database: Mendelian Inheritance in Man.
object: Identifier.
synonym: MIM [used by NCBI]
example: OMIM:190198
generic_url: http://www3.ncbi.nlm.nih.gov/Omim/searchomim.html
url_syntax: http://www3.ncbi.nlm.nih.gov/htbin-post/Omim/dispmim?
url_example: http://www3.ncbi.nlm.nih.gov/htbin-post/Omim/dispmim?190198

abbreviation: PDB
database: Protein Data Bank.
object: Identifier.
example: PDB:1A4U
generic_url: http://msd.ebi.ac.uk/
generic_url: http://www.rcsb.org/pdb/
url_syntax:
url_example: http://www.rcsb.org/pdb/cgi/explore.cgi?pid=223051005992697&pdbId=1A4U

abbreviation: Pfam
database: Pfam: Protein families database of alignments and HMMs.
object: Accession number.
example: Pfam:PF00046
generic_url: http://www.sanger.ac.uk/Software/Pfam/
url_syntax:  http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?
url_example: http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?PF00046

abbreviation: PIR
database: Protein Information Resource.
object: Accession number.
example: PIR:I49499
generic_url: http://www-nbrf.georgetown.edu/pir/
url_syntax: http://pir.georgetown.edu/cgi-bin/pirwww/nbrfget?uid=
url_example: http://pir.georgetown.edu/cgi-bin/pirwww/nbrfget?uid=I49499

abbreviation: PMID
database: PubMed.
object: Identifier.
synonym: PUBMED
example: PMID:4208797
generic_url: http://www.ncbi.nlm.nih.gov/PubMed/
url_syntax:
url_example: http://www.ncbi.nlm.nih.gov:80/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=4208797&dopt=Abstract

abbreviation: Pompep
database: Schizosaccharomyces pompbe protein data.
object: Accession number.
example: Pompep:SPAC890.04C
generic_url: ftp://ftp.sanger.ac.uk/pub/yeast/Pombe/Protein_data/
url_syntax:

abbreviation: PompepG
database:  Schizzosaccharomyces pompbe genes.
object: Gene symbol.
example: PompepG:YTM1
generic_url: http://www.sanger.ac.uk/cgi-bin/yeastpub/GN_KW_search.p
url_syntax:

abbreviation: Prosite
database: Prosite. Database of protein families and domains.
object: Accession number.
example: Prosite:PS00365
generic_url: http://www.expasy.ch/prosite/
url_syntax: http://www.expasy.ch/cgi-bin/prosite-search-ac?
url_example: http://www.expasy.ch/cgi-bin/prosite-search-ac?PS00365

abbreviation: protein_id
database: The protein identifier shared by DDBJ/EMBL-bank/GenBank nucleotide
sequence databases.
object: Identifier.
example: protein_id:CAA71991
generic_url:
url_syntax:

abbreviation: PROW
database: Protein Reviews on the Web.
generic_url: http://www.ncbi.nlm.nih.gov/prow/

abbreviation: RGD
database: Rat Genome Database.
object: Accession Number
example: RGD:2340
generic_url: http://rgd.mcw.edu/
url_syntax: http://rgd.mcw.edu/query/query.cgi?id=

abbreviation: REMTREMBL
database: Computer-annotated protein sequence database containing the
translations of those codings sequences (CDS) present in the EMBL
Nucleotide Sequence Database that will not be included in
SWISS-PROT. These include: immunoglobulins and T-cell receptors,
synthetic sequences, patent application sequences, small fragments,
CDS not coding for real proteins and truncated proteins.
object: Identifier.
example: REMTREMBL:CAC01666
generic_url:
url_syntax:

abbreviation: RESID
database: RESID Database of Protein Modifications.
object: Identifier.
example: RESID:AA0062
generic_url: ftp://ftp.ncifcrf.gov/pub/users/residues/
url_syntax:

abbreviation: SGD
database: Saccharomyces Genome Database.
object: Identifier for SGD Loci
example: SGD:S0006169
synonym: SGDID
note: The SGD is a synonym for the SGDID
generic_url: http://genome-www.stanford.edu/Saccharomyces/
url_syntax: http://genome-www4.stanford.edu/cgi-bin/SGD/locus.pl?sgdid=
url_example: http://genome-www4.stanford.edu/cgi-bin/SGD/locus.pl?sgdid=S0006169

abbreviation: SGD_LOCUS
database: Saccharomyces Genome Database.
object: Gene name (gene symbol in mammalian nomenclature).
note: This object also includes the systematic S. cerevisiae ORF names, eg. YEL001C.
example: SGD_LOCUS:GAL4 or SGD_LOCUS:YEL001C
generic_url: http://genome-www.stanford.edu/Saccharomyces/
url_syntax: http://genome-www4.stanford.edu/cgi-bin/SGD/locus.pl?locus=
url_example: http://genome-www4.stanford.edu/cgi-bin/SGD/locus.pl?locus=GAL4

abbreviation: SGD_REF
database: Saccharomyces Genome Database.
object: Literature Reference Identifier.
example: SGD_REF:19239
generic_url: http://genome-www.stanford.edu/Saccharomyces/
url_syntax: http://genome-www4.stanford.edu/cgi-bin/SGD/reference/reference.pl?refNo=
url_example: http://genome-www4.stanford.edu/cgi-bin/SGD/reference/reference.pl?refNo=19239

abbreviation: SMD
database: Stanford Microarray Database
object:
example:
generic_url: http://genome-www.stanford.edu/microarray
url_syntax:

abbreviation: Swiss-Prot
database: Swiss-Prot protein database.
object: Accession number.
synonym: SP
synonym: SWP
synonym: SWISS-PROT
example: Swiss-Prot:P45867
generic_url: http://www.ebi.ac.uk/swissprot/
generic_url: http://ca.expasy.org/sprot/
url_syntax: http://www.expasy.ch/cgi-bin/sprot-search-ac?
url_example: http://www.expasy.ch/cgi-bin/sprot-search-ac?P45867

abbreviation: SPTR
database: The combination of SWISS-PROT and TrEMBL; includes TrEMBLnew.
object: Accession number.
synonym: SWALL
example: SPTR:P45867
generic_url: http://www.ebi.ac.uk/swissprot/
generic_url: http://ca.expasy.org/sprot/
url_syntax: http://www.expasy.ch/cgi-bin/sprot-search-ac?
url_example: http://www.expasy.ch/cgi-bin/sprot-search-ac?P45867

abbreviation: SUBTILIST
database: Bacillus subtilis Genome Sequence Project.
object: Accession number.
example: SUBTILISTG:BG11384
generic_url: http://genolist.pasteur.fr/SubtiList/
url_syntax:

abbreviation: SUBTILISTG
database: Bacillus subtilis Genome Sequence Project.
object: Gene symbol.
example: SUBTILISTG:accC
generic_url: http://genolist.pasteur.fr/SubtiList/
url_syntax:

abbreviation: TAIR
database: The Arabidopsis Information Resource.
object: Accession number.
example: TAIR:gene:2062713
generic_url: http://www.arabidopsis.org/
url_syntax: http://www.arabidopsis.org/servlets/TairObject?accession=
url_example: http://www.arabidopsis.org/servlets/TairObject?accession=gene:2062713

abbreviation: taxon
database: NCBI Taxman.
object: Identifier.
example: taxon:7227
generic_url: http://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html/
url_syntax:

abbreviation: TC
database: The Transport Protein Database.
object: Identifier.
example: TC:9.A.4.1.1
generic_url: http://tcdb.ucsd.edu/tcdb/
url_syntax: http://tcdb.ucsd.edu/tcdb/tcprotein.php?substrate=
url_example: http://tcdb.ucsd.edu/tcdb/tcprotein.php?substrate=9.A.4.1.1

abbreviation: TIGR
database: The Institute for Genomic Research.
object: 
example: 
generic_url: http://www.tigr.org/
url_syntax:

abbreviation: TIGR_Ath1
database: The Institute for Genomic Research, Arabidopsis thaliana database.
object: Accession.
example: TIGR_Ath1:At3g01440
generic_url: http://www.tigr.org/tdb/e2k1/ath1/ath1.shtml
url_syntax: http://www.tigr.org/tigr-scripts/euk_manatee/shared/ORF_infopage.cgi?db=ath1&orf=
url_example: http://www.tigr.org/tigr-scripts/euk_manatee/shared/ORF_infopage.cgi?db=ath1&orf=At3g01440
 
abbreviation: TIGR_CMR
database: The Institute for Genomic Research, Comprehensive Microbial Resource.
object: Locus.
example: TIGR_CMR:VCA0557
generic_url: http://www.tigr.org/
url_syntax: http://www.tigr.org/tigr-scripts/CMR2/GenePage.spl?locus=
url_example:
http://www.tigr.org/tigr-scripts/CMR2/GenePage.spl?locus=VCA0557

abbreviation: TIGR_EGAD
database: The Institute for Genomic Research, EGAD database
object: Accession.
example: TIGR_EGAD:74462
generic_url: http://www.tigr.org/
url_syntax: http://www.tigr.org/tigr-scripts/CMR2/ht_report.spl?prot_id=
url_example:
http://www.tigr.org/tigr-scripts/CMR2/ht_report.spl?prot_id=74462

abbreviation: TIGR_Pfa1
database: The Institute for Genomic Research, Plasmodium falciparum database.
object: Accession.
example: TIGR_Pfa1:PFB0010w 
generic_url: http://www.tigr.org/tdb/e2k1/pfa1/pfa1.shtml
url_syntax: http://www.tigr.org/tigr-scripts/euk_manatee/shared/ORF_infopage.cgi?db=pfa1&orf=
url_example: http://www.tigr.org/tigr-scripts/euk_manatee/shared/ORF_infopage.cgi?db=pfa1&orf=PFB0010w
 
abbreviation: TIGR_Tba1
database: The Institute for Genomic Research, Trypanosoma brucei database.
object: Accession.
example: TIGR_Tba1:25N14.10
generic_url: http://www.tigr.org/tdb/e2k1/tba1/
url_syntax: http://www.tigr.org/tigr-scripts/euk_manatee/shared/ORF_infopage.cgi?db=tba1&orf=
url_example: http://www.tigr.org/tigr-scripts/euk_manatee/shared/ORF_infopage.cgi?db=tba1&orf=25N14.10

abbreviation: TIGR_TIGRFAMS
database: The Institute for Genomic Research, TIGRFAMs HMM collection.
object: Accession.
example: TIGR_TIGRFAMS:TIGR00254
generic_url: http://www.tigr.org/
url_syntax: http://www.tigr.org/tigr-scripts/CMR2/hmm_report.spl?acc=
url_example:
http://www.tigr.org/tigr-scripts/CMR2/hmm_report.spl?acc=TIGR00254

abbreviation: TIGR_TGI
database: The Institute for Genomic Research, TIGR Gene Index.
object: TC accession.
example: TIGR_TGI:Cattle_TC123931
generic_url: http://www.tigr.org/
url_syntax: http://www.tigr.org/tigr-scripts/nhgi_scripts/tc_report.pl?tc=?
url_example:
http://www.tigr.org/tigr-scripts/nhgi_scripts/tc_report.pl?tc=Cattle_TC123931


abbreviation: TrEMBL
database: Computer-annotated protein sequence database supplementing
SWISS-PROT and containing the translations of all coding sequences
(CDS) present in the EMBL Nucleotide Sequence Database but not yet
integrated in SWISS-PROT. Does not include TrEMBLnew.
object: Accession number.
example: TrEMBL:Q00177
synonym: SPTREMBL
synonym: TREMBL
synonym: TR
generic_url: http://www.ebi.ac.uk/swissprot/
generic_url: http://ca.expasy.org/sprot/
url_syntax: http://www.expasy.ch/cgi-bin/sprot-search-ac?
url_example: http://www.expasy.ch/cgi-bin/sprot-search-ac?Q00177

abbreviation: UM-BBD
database: The University of Minnesota Biocatalysis/Biodegradation Database.
object: Prefix.
example:
generic_url: http://umbbd.ahc.umn.edu/index.html
url_syntax:

abbreviation: UM-BBD_enzymeID
database: The University of Minnesota Biocatalysis/Biodegradation Database.
object: Enzyme identifier.
example: UM-BBD_enzymeID:e0413
generic_url: http://umbbd.ahc.umn.edu/index.html
url_syntax: http://umbbd.ahc.umn.edu:8007/umbbd/servlet/pageservlet?ptype=ep&enzymeID=
url_example: http://umbbd.ahc.umn.edu:8007/umbbd/servlet/pageservlet?ptype=ep&enzymeID=e0413

abbreviation: UM-BBD_pathwayID
database: The University of Minnesota Biocatalysis/Biodegradation Database.
object: Pathway identifier.
example: UM-BBD_pathwayID:acr
generic_url: http://umbbd.ahc.umn.edu/index.html
url_syntax:
url_example: http://umbbd.ahc.umn.edu/acr/acr_map.html

abbreviation: VIDA
database: Virus Database at University College London
object: 
example: 
generic_url: http://www.biochem.ucl.ac.uk/bsm/virus_database/VIDA.html
url_syntax: 
url_example: 

abbreviation: WB
database: WormBase, database of nematode biology.
object: Gene symbol.
example: WB:lin-12
generic_url: http://www.wormbase.org/
url_syntax: http://www.wormbase.org/db/get?class=Locus;name=
url_example: http://www.wormbase.org/db/get?class=Locus;name=lin-12

abbreviation: WP
database: Wormpep, database of proteins of C. elegans.
object: Identifier.
example: WP:CE25104
generic_url: http://www.wormbase.org/
url_syntax: http://www.wormbase.org/db/get?class=Protein;name=
url_example: http://www.wormbase.org/db/get?class=Protein;name=WP%3ACE15104

abbreviation: ZFIN
database: The Zebrafish information network
object: 
example: 
generic_url: http://zfin.org/
url_syntax: 
url_example: html>