OrthoDB presents a catalog of eukaryotic orthologous protein-coding genes across vertebrates, arthropods, and fungi. Orthology refers to the last common ancestor of the species under consideration, and thus OrthoDB explicitly delineates orthologs at each radiation along the species phylogeny. The database of orthologs presents available protein descriptors, together with Gene Ontology and InterPro attributes, which serve to provide general descriptive annotations of the orthologous groups
This resource is a provider. This means that
while it may have its own prefix, it actually reuses the identifiers provided by the
uniprot
prefix. For all use cases, you should use uniprot
instead of orthodb
.
orthodb
Local identifiers in OrthoDB should match this
regular expression:
^\w+$
Compact URIs (CURIEs) constructed from OrthoDB should match
this regular expression:
^orthodb:\w+$
The metaregistry provides mappings between the Bioregistry and other registries. There are 6 mappings to external registries for this resource with 3 unique external prefixes.
Registry Name | Registry Metaprefix | External Prefix | Curate |
---|---|---|---|
BioContext | biocontext |
ORTHODB
|
|
FAIRSharing | fairsharing |
FAIRsharing.x989d5
|
|
Identifiers.org | miriam |
orthodb
|
|
N2T | n2t |
orthodb
|
|
Prefix Commons | prefixcommons |
orthodb
|
|
UniProt | uniprot |
DB-0143
|
Providers are various services that resolve CURIEs to URLs. The example CURIE
orthodb:Q9P0K8
is used to demonstrate the provides available for
this resource. Generation of OLS and BioPortal URLs requires additional programmatic
logic beyond string formatting.
Name | Metaprefix | URI |
---|---|---|
OrthoDB | orthodb |
http://cegg.unige.ch/orthodb/results?searchtext=Q9P0K8 |
Bioregistry | bioregistry |
https://bioregistry.io/orthodb:Q9P0K8 |
Identifiers.org | miriam |
https://identifiers.org/orthodb:Q9P0K8 |
Name-to-Thing | n2t |
https://n2t.net/orthodb:Q9P0K8 |
Additional providers curated in the Bioregistry are listed here.
Code | Name | URL |
---|---|---|
bio2rdf |
Bio2RDF | http://bio2rdf.org/orthodb:Q9P0K8 |