Commit 8195a408 authored by Ian Longden's avatar Ian Longden
Browse files

Added direct swissprot mappings fro human, mouse and rat

parent 747dc3d9
......@@ -728,7 +728,7 @@ priority = 1
prio_descr = ID assigned by FlyBase
parser = FlybaseParser
release_uri =
data_uri = file:/lustre/work1/ensembl/gk4/flybase/dmel_5.13/seqdata/dmel-all-r5.13.gff.gz
data_uri = file:/lustre/scratch103/ensembl/ianl/release_57/drosophila_melanogaster/dmel-all-r5.13.gff.gz
[source flybase_gene_id::drosophila_pseudoobscura]
# Used by drosophila_pseudoobscura
......@@ -1016,7 +1016,7 @@ priority = 1
prio_descr = main
parser = GOSlimParser
release_uri =
data_uri = script:host=>ens-staging1,dbname=>ensembl_ontology_57,
data_uri = script:host=>ens-livemirror,dbname=>ensembl_ontology_56,
[source GO::homo_sapiens]
......@@ -2244,12 +2244,33 @@ release_uri =
name = Uniprot/SWISSPROT
download = Y
order = 20
priority = 1
prio_descr =
priority = 2
prio_descr = sequence_mapped
parser = UniProtParser
release_uri = ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase/reldate.txt
data_uri = ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase/uniprot_sprot.dat.gz
#
# Direct Uniprot mapping for mouse, human and rat.
# Note these have to be done LAST so that we get all
# the dependent xrefs that are available from the original.
# swissprot entry
[source Uniprot/SWISSPROT::DIRECT]
# Used by homo_sapiens
name = Uniprot/SWISSPROT
download = Y
order = 300
priority = 1
prio_descr = uniprot_mapped
parser = UniProtDirectParser
release_uri =
data_uri = ftp://ftp.ebi.ac.uk/pub/contrib/xrefs/ens-sp.map
[source Uniprot/SWISSPROT::MULTI-predicted]
# Special source used in UniProtParser. No species uses this source.
name = Uniprot/SWISSPROT_predicted
......@@ -3403,8 +3424,9 @@ source = RefSeq_peptide::homo_sapiens
source = UniGene::homo_sapiens
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/SWISSPROT::DIRECT
source = ncRNA::MULTI
#source = UCSC::homo_sapiens ADD WHEN STABLE ID'S ADDED FOR NEW ASEMBLY
source = UCSC::homo_sapiens
source = HGNC_curated_transcript::homo_sapiens
source = goslim_goa::MULTI
......@@ -3494,6 +3516,7 @@ source = RefSeq_peptide::mus_musculus
source = UniGene::mus_musculus
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/SWISSPROT::DIRECT
source = ncRNA::MULTI
source = UCSC::mus_musculus
source = Fantom::mus_musculus
......@@ -3655,6 +3678,7 @@ source = RefSeq_peptide::rattus_norvegicus
source = UniGene::rattus_norvegicus
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/SWISSPROT::DIRECT
source = ncRNA::MULTI
......
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