Update default EGB_NCBI URL

[twalsh-ebi]

Description

This PR would update the default EGB_NCBI URL in the EnsEMBL::Web::Configuration::Location module, which is used to generate a link to an NCBI genome browser in location views that do not depict a specific region.

It would affect 16 genomes in Ensembl Vertebrates (@EreboPSilva) and 3 genomes in Ensembl Metazoa (@vsitnik).

Views affected

This would affect the sidebar menu in location views that do not show a specific region (e.g. "Whole genome" view).

The table below shows information for each affected species in Ensembl Vertebrates. There is an equivalent table for Metazoa in eg-web-common PR 173.

For each species, the sandbox_page and rc_page columns contain links to relevant pages in the sandbox and RC sites, respectively. The genbank_accession contains the GenBank accession of the assembly as shown in Ensembl, while the resolved_refseq_accession shows the RefSeq accession resolved by the GDV when accessed via the Ensembl link for "Other genome browsers". The accession_correspondence shows the result of an initial check of the correspondence between the GenBank accession and resolved RefSeq accession.

sandbox_page	rc_page	genbank_accession	resolved_refseq_accession	accession_correspondence
Bos_taurus	Bos_taurus	GCA_002263795.4	GCF_002263795.2	not ok
Caenorhabditis_elegans	Caenorhabditis_elegans	GCA_000002985.3	GCF_000002985.6	ok
Canis_lupus_familiaris	Canis_lupus_familiaris	GCA_014441545.1	GCF_014441545.1	ok
Danio_rerio	Danio_rerio	GCA_000002035.4	GCF_000002035.6	ok
Drosophila_melanogaster	Drosophila_melanogaster	GCA_000001215.4	GCF_000001215.4	ok
Equus_caballus	Equus_caballus	GCA_002863925.1	GCF_002863925.1	ok
Gallus_gallus	Gallus_gallus	GCA_016699485.1	GCF_016699485.2	ok
Homo_sapiens	Homo_sapiens	GCA_000001405.29	GCF_000001405.40	ok
Macaca_mulatta	Macaca_mulatta	GCA_003339765.3	GCF_003339765.1	ok
Monodelphis_domestica	Monodelphis_domestica	GCA_000002295.1	GCF_000002295.2	ok
Mus_musculus	Mus_musculus	GCA_000001635.9	GCF_000001635.27	ok
Ovis_aries	Ovis_aries	GCA_016772045.2	GCF_016772045.1	not ok
Pan_troglodytes	Pan_troglodytes	GCA_000001515.5	GCF_000001515.7	ok
Rattus_norvegicus	Rattus_norvegicus	GCA_036323735.1	GCF_036323735.1	ok
Saccharomyces_cerevisiae	Saccharomyces_cerevisiae	GCA_000146045.2	GCF_000146045.2	ok
Sus_scrofa	Sus_scrofa	GCA_000003025.6	GCF_000003025.6	ok

Possible complications

None expected.

Merge conflicts

None detected.

Related JIRA Issues (EBI developers only)

• N/A