Our partner Ensembl Genomes offer a public, read-only MySQL server with copies of the species-specific and comparative genomic databases that we use. To use this with the mysql command-line client:
$ mysql -hmysql-eg-publicsql.ebi.ac.uk -P4157 -uanonymous
Please note that the versioning scheme used at this public database differs from ours; Gramene's release 48_82 is set as version 29_82.
Gramene offers a legacy public, read-only MySQL server for release 40 of our databases. You can connect to the host "gramenedb.gramene.org" with the password "gramene," e.g.:
mysql -hgramenedb.gramene.org -pgramene
We have deployed an API using swagger to support searching Gramene's gene annotations at data.gramene.org.
In addition to the automatic documentation here are some example queries:
Search for the "NAC001" gene by keyword
https://data.gramene.org/genes?q=NAC001&fl=_id,name,biotype,species,location
Search for GO terms containing the keyword "NADP"
https://data.gramene.org/GO?q=NADP
Retrieve gene structure annotation from the Ensembl API
https://data.gramene.org/ensembl/lookup/id/AT3G52430?content-type=application/json;expand=1
Get the top level pathways from Plant Reactome for Oryza sativa
https://plantreactome.gramene.org/ContentService/data/pathways/top/4530/