From d31a42edc0273a2de3adb7ca297ec17aebc04d58 Mon Sep 17 00:00:00 2001 From: Magali Ruffier <mr6@ebi.ac.uk> Date: Thu, 26 Sep 2013 10:31:48 +0000 Subject: [PATCH] added species-specific refseq_dna and refseq_peptide sources where available --- misc-scripts/xref_mapping/xref_config.ini | 702 ++++++++++++++++++++-- 1 file changed, 648 insertions(+), 54 deletions(-) diff --git a/misc-scripts/xref_mapping/xref_config.ini b/misc-scripts/xref_mapping/xref_config.ini index 3aa2f66d0c..2845ff8334 100644 --- a/misc-scripts/xref_mapping/xref_config.ini +++ b/misc-scripts/xref_mapping/xref_config.ini @@ -1690,6 +1690,17 @@ parser = RefSeqParser release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt data_uri = ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_other/vertebrate_other*.rna.fna.gz +[source RefSeq_dna::anolis_carolinensis] +# Used by anolis_carolinensis +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Anolis_carolinensis/RNA/rna.gbk.gz + [source RefSeq_dna::apis_mellifera] # Used by apis_mellifera name = RefSeq_dna @@ -1712,6 +1723,28 @@ parser = RefSeqGPFFParser release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt data_uri = ftp://ftp.ncbi.nih.gov/genomes/Bos_taurus/RNA/rna.gbk.gz +[source RefSeq_dna::callithrix_jacchus] +# Used by callithrix_jacchus +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Callithrix_jacchus/RNA/rna.gbk.gz + +[source RefSeq_dna::cavia_porcellus] +# Used by cavia_porcellus +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Cavia_porcellus/RNA/rna.gbk.gz + [source RefSeq_dna::sus_scrofa] # Used by sus_scrofa name = RefSeq_dna @@ -1723,6 +1756,270 @@ parser = RefSeqGPFFParser release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt data_uri = ftp://ftp.ncbi.nih.gov/genomes/Sus_scrofa/RNA/rna.gbk.gz +[source RefSeq_dna::felis_catus] +# Used by felis_catus +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Felis_catus/RNA/rna.gbk.gz + +[source RefSeq_dna::macaca_mulatta] +# Used by macaca_mulatta +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Macaca_mulatta/RNA/rna.gbk.gz + +[source RefSeq_dna::ailuropoda_melanoleuca] +# Used by ailuropoda_melanoleuca +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Ailuropoda_melanoleuca/RNA/rna.gbk.gz + +[source RefSeq_dna::anas_platyrhynchos] +# Used by anas_platyrhynchos +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Anas_platyrhynchos/RNA/rna.gbk.gz + +[source RefSeq_dna::caenorhabditis_elegans] +# Used by caenorhabditis_elegans +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Caenorhabditis_elegans/RNA/rna.gbk.gz + +[source RefSeq_dna::ciona_intestinalis] +# Used by ciona_intestinalis +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Ciona_intestinalis/RNA/rna.gbk.gz + +[source RefSeq_dna::dasypus_novemcinctus] +# Used by dasypus_novemcinctus +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Dasypus_novemcinctus/RNA/rna.gbk.gz + +[source RefSeq_dna::drosophila_melanogaster] +# Used by drosophila_melanogaster +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Drosophila_melanogaster/RNA/rna.gbk.gz + +[source RefSeq_dna::echinops_telfairi] +# Used by echinops_telfairi +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Echinops_telfairi/RNA/rna.gbk.gz + +[source RefSeq_dna::gorilla_gorilla] +# Used by gorilla_gorilla +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Gorilla_gorilla/RNA/rna.gbk.gz + +[source RefSeq_dna::ictidomys_tridecemlineatus] +# Used by ictidomys_tridecemlineatus +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Ictidomys_tridecemlineatus/RNA/rna.gbk.gz + +[source RefSeq_dna::loxodonta_africana] +# Used by loxodonta_africana +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Loxodonta_africana/RNA/rna.gbk.gz + +[source RefSeq_dna::monodelphis_domestica] +# Used by monodelphis_domestica +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Monodelphis_domestica/RNA/rna.gbk.gz + +[source RefSeq_dna::mustela_putorius_furo] +# Used by mustela_putorius_furo +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Mustela_putorius_furo/RNA/rna.gbk.gz + +[source RefSeq_dna::ochotona_princeps] +# Used by ochotona_princeps +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Ochotona_princeps/RNA/rna.gbk.gz + +[source RefSeq_dna::oreochromis_niloticus] +# Used by oreochromis_niloticus +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Oreochromis_niloticus/RNA/rna.gbk.gz + +[source RefSeq_dna::ornithorhynchus_anatinus] +# Used by ornithorhynchus_anatinus +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Ornithorhynchus_anatinus/RNA/rna.gbk.gz + +[source RefSeq_dna::oryctolagus_cuniculus] +# Used by oryctolagus_cuniculus +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Oryctolagus_cuniculus/RNA/rna.gbk.gz + +[source RefSeq_dna::oryzias_latipes] +# Used by oryzias_latipes +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Oryzias_latipes/RNA/rna.gbk.gz + +[source RefSeq_dna::otolemur_garnettii] +# Used by otolemur_garnettii +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Otolemur_garnettii/RNA/rna.gbk.gz + +[source RefSeq_dna::sorex_araneus] +# Used by sorex_araneus +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Sorex_araneus/RNA/rna.gbk.gz + +[source RefSeq_dna::taeniopygia_guttata] +# Used by taeniopygia_guttata +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Taeniopygia_guttata/RNA/rna.gbk.gz + +[source RefSeq_dna::takifugu_rubripes] +# Used by takifugu_rubripes +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Takifugu_rubripes/RNA/rna.gbk.gz + +[source RefSeq_dna::tursiops_truncatus] +# Used by tursiops_truncatus +name = RefSeq_dna +download = Y +order = 20 +priority = 2 +prio_descr = refseq +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Tursiops_truncatus/RNA/rna.gbk.gz + [source RefSeq_dna::strongylocentrotus_purpuratus] # Used by strongylocentrotus_purpuratus name = RefSeq_dna @@ -1997,6 +2294,17 @@ parser = RefSeqGPFFParser release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt data_uri = ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_other/vertebrate_other*.protein.gpff.gz +[source RefSeq_peptide::anolis_carolinensis] +# Used by anolis_carolinensis +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Anolis_carolinensis/protein/protein.gbk.gz + [source RefSeq_peptide::apis_mellifera] # Used by apis_mellifera name = RefSeq_peptide @@ -2019,6 +2327,17 @@ parser = RefSeqGPFFParser release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt data_uri = ftp://ftp.ncbi.nih.gov/genomes/Bos_taurus/protein/protein.gbk.gz +[source RefSeq_peptide::callithrix_jacchus] +# Used by callithrix_jacchus +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Callithrix_jacchus/protein/protein.gbk.gz + [source RefSeq_peptide::sus_scrofa] # Used by sus_scrofa name = RefSeq_peptide @@ -2030,6 +2349,281 @@ parser = RefSeqGPFFParser release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt data_uri = ftp://ftp.ncbi.nih.gov/genomes/Sus_scrofa/protein/protein.gbk.gz +[source RefSeq_peptide::felis_catus] +# Used by felis_catus +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Felis_catus/protein/protein.gbk.gz + +[source RefSeq_peptide::macaca_mulatta] +# Used by macaca_mulatta +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Macaca_mulatta/protein/protein.gbk.gz + +[source RefSeq_peptide::ailuropoda_melanoleuca] +# Used by ailuropoda_melanoleuca +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Ailuropoda_melanoleuca/protein/protein.gbk.gz + +[source RefSeq_peptide::anas_platyrhynchos] +# Used by anas_platyrhynchos +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Anas_platyrhynchos/protein/protein.gbk.gz + +[source RefSeq_peptide::caenorhabditis_elegans] +# Used by caenorhabditis_elegans +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Caenorhabditis_elegans/protein/protein.gbk.gz + +[source RefSeq_peptide::cavia_porcellus] +# Used by cavia_porcellus +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Cavia_porcellus/protein/protein.gbk.gz + +[source RefSeq_peptide::ciona_intestinalis] +# Used by ciona_intestinalis +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Ciona_intestinalis/protein/protein.gbk.gz + +[source RefSeq_peptide::dasypus_novemcinctus] +# Used by dasypus_novemcinctus +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Dasypus_novemcinctus/protein/protein.gbk.gz + +[source RefSeq_peptide::drosophila_melanogaster] +# Used by drosophila_melanogaster +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Drosophila_melanogaster/protein/protein.gbk.gz + +[source RefSeq_peptide::echinops_telfairi] +# Used by echinops_telfairi +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Echinops_telfairi/protein/protein.gbk.gz + +[source RefSeq_peptide::gorilla_gorilla] +# Used by gorilla_gorilla +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Gorilla_gorilla/protein/protein.gbk.gz + +[source RefSeq_peptide::ictidomys_tridecemlineatus] +# Used by ictidomys_tridecemlineatus +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Ictidomys_tridecemlineatus/protein/protein.gbk.gz + +[source RefSeq_peptide::loxodonta_africana] +# Used by loxodonta_africana +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Loxodonta_africana/protein/protein.gbk.gz + +[source RefSeq_peptide::monodelphis_domestica] +# Used by monodelphis_domestica +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Monodelphis_domestica/protein/protein.gbk.gz + +[source RefSeq_peptide::mustela_putorius_furo] +# Used by mustela_putorius_furo +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Mustela_putorius_furo/protein/protein.gbk.gz + +[source RefSeq_peptide::ochotona_princeps] +# Used by ochotona_princeps +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Ochotona_princeps/protein/protein.gbk.gz + +[source RefSeq_peptide::oreochromis_niloticus] +# Used by oreochromis_niloticus +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Oreochromis_niloticus/protein/protein.gbk.gz + +[source RefSeq_peptide::ornithorhynchus_anatinus] +# Used by ornithorhynchus_anatinus +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Ornithorhynchus_anatinus/protein/protein.gbk.gz + +[source RefSeq_peptide::oryctolagus_cuniculus] +# Used by oryctolagus_cuniculus +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Oryctolagus_cuniculus/protein/protein.gbk.gz + +[source RefSeq_peptide::oryzias_latipes] +# Used by oryzias_latipes +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Oryzias_latipes/protein/protein.gbk.gz + +[source RefSeq_peptide::otolemur_garnettii] +# Used by otolemur_garnettii +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Otolemur_garnettii/protein/protein.gbk.gz + +[source RefSeq_peptide::sorex_araneus] +# Used by sorex_araneus +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Sorex_araneus/protein/protein.gbk.gz + +[source RefSeq_peptide::taeniopygia_guttata] +# Used by taeniopygia_guttata +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Taeniopygia_guttata/protein/protein.gbk.gz + +[source RefSeq_peptide::takifugu_rubripes] +# Used by takifugu_rubripes +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Takifugu_rubripes/protein/protein.gbk.gz + +[source RefSeq_peptide::tursiops_truncatus] +# Used by tursiops_truncatus +name = RefSeq_peptide +download = Y +order = 20 +priority = 1 +prio_descr = +parser = RefSeqGPFFParser +release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt +data_uri = ftp://ftp.ncbi.nih.gov/genomes/Tursiops_truncatus/protein/protein.gbk.gz + [source RefSeq_peptide::amphimedon_queenslandica] # Used by amphimedon_queenslandica name = RefSeq_peptide @@ -4148,8 +4742,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::ailuropoda_melanoleuca +source = RefSeq_peptide::ailuropoda_melanoleuca #source = UniGene::ailuropoda_melanoleuca ## unigene source not available for this species source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -4167,8 +4761,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_other -source = RefSeq_peptide::MULTI-vertebrate_other +source = RefSeq_dna::anas_platyrhynchos +source = RefSeq_peptide::anas_platyrhynchos source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI source = Uniprot/SWISSPROT::DIRECT @@ -4185,8 +4779,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_other -source = RefSeq_peptide::MULTI-vertebrate_other +source = RefSeq_dna::anolis_carolinensis +source = RefSeq_peptide::anolis_carolinensis source = UniGene::anolis_carolinensis source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -4651,8 +5245,8 @@ source = GO::caenorhabditis_elegans source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-invertebrate -source = RefSeq_peptide::MULTI-invertebrate +source = RefSeq_dna::caenorhabditis_elegans +source = RefSeq_peptide::caenorhabditis_elegans source = UniGene::caenorhabditis_elegans source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -4667,8 +5261,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::callithrix_jacchus +source = RefSeq_peptide::callithrix_jacchus source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI source = Uniprot/SWISSPROT::DIRECT @@ -4704,8 +5298,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::cavia_porcellus +source = RefSeq_peptide::cavia_porcellus source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI source = Uniprot/SWISSPROT::DIRECT @@ -4743,8 +5337,8 @@ source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI source = RefSeq_dna::MULTI-vertebrate_other -source = RefSeq_peptide::MULTI-vertebrate_other -source = RefSeq_peptide::MULTI-invertebrate +source = RefSeq_peptide::ciona_intestinalis +source = RefSeq_peptide::ciona_intestinalis source = UniGene::ciona_intestinalis source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -4826,8 +5420,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::dasypus_novemcinctus +source = RefSeq_peptide::dasypus_novemcinctus source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI source = Uniprot/SWISSPROT::DIRECT @@ -4882,8 +5476,8 @@ source = Interpro::MULTI source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI source = UniParc::MULTI -source = RefSeq_dna::MULTI-invertebrate -source = RefSeq_peptide::MULTI-invertebrate +source = RefSeq_dna::drosophila_melanogaster +source = RefSeq_peptide::drosophila_melanogaster source = GO::drosophila_melanogaster source = goslim_goa::EG source = InterproGO::MULTI @@ -5093,8 +5687,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::echinops_telfairi +source = RefSeq_peptide::echinops_telfairi source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI source = Uniprot/SWISSPROT::DIRECT @@ -5149,8 +5743,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::felis_catus +source = RefSeq_peptide::felis_catus source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI source = Uniprot/SWISSPROT::DIRECT @@ -5225,8 +5819,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::gorilla_gorilla +source = RefSeq_peptide::gorilla_gorilla source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI source = Uniprot/SWISSPROT::DIRECT @@ -5275,8 +5869,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::ictidomys_tridecemlineatus +source = RefSeq_peptide::ictidomys_tridecemlineatus #source = UniGene::ictidomys_tridecemlineatus ## unigene source not available for this species source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5334,8 +5928,8 @@ source = Uniprot/SWISSPROT::DIRECT source = UniParc::MULTI source = RFAM::MULTI source = miRBase::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::loxodonta_africana +source = RefSeq_peptide::loxodonta_africana source = ArrayExpress::MULTI [species macaca_mulatta] @@ -5346,8 +5940,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::macaca_mulatta +source = RefSeq_peptide::macaca_mulatta source = UniGene::macaca_mulatta source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5422,8 +6016,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::monodelphis_domestica +source = RefSeq_peptide::monodelphis_domestica source = UniGene::monodelphis_domestica source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5472,8 +6066,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::mustela_putorius_furo +source = RefSeq_peptide::mustela_putorius_furo #source = UniGene::mustela_putorius_furo ## unigene source not available for this species source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5510,8 +6104,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::ochotona_princeps +source = RefSeq_peptide::ochotona_princeps source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI source = Uniprot/SWISSPROT::DIRECT @@ -5527,8 +6121,8 @@ source = EntrezGene::MULTI source = GO::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_other -source = RefSeq_peptide::MULTI-vertebrate_other +source = RefSeq_dna::oreochromis_niloticus +source = RefSeq_peptide::oreochromis_niloticus source = UniGene::oreochromis_niloticus source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5547,8 +6141,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::ornithorhynchus_anatinus +source = RefSeq_peptide::ornithorhynchus_anatinus source = UniGene::ornithorhynchus_anatinus source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5569,8 +6163,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::oryctolagus_cuniculus +source = RefSeq_peptide::oryctolagus_cuniculus source = UniGene::oryctolagus_cuniculus source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5588,8 +6182,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_other -source = RefSeq_peptide::MULTI-vertebrate_other +source = RefSeq_dna::oryzias_latipes +source = RefSeq_peptide::oryzias_latipes source = UniGene::oryzias_latipes source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5607,8 +6201,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::otolemur_garnettii +source = RefSeq_peptide::otolemur_garnettii #source = UniGene::otolemur_garnettii ## unigene source not available for this species source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5822,8 +6416,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::sorex_araneus +source = RefSeq_peptide::sorex_araneus #source = UniGene::sorex_araneus ## unigene source not available for this species source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5979,8 +6573,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_other -source = RefSeq_peptide::MULTI-vertebrate_other +source = RefSeq_dna::taeniopygia_guttata +source = RefSeq_peptide::taeniopygia_guttata source = UniGene::taeniopygia_guttata source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -5998,8 +6592,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_other -source = RefSeq_peptide::MULTI-vertebrate_other +source = RefSeq_dna::takifugu_rubripes +source = RefSeq_peptide::takifugu_rubripes source = UniGene::takifugu_rubripes source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI @@ -6077,8 +6671,8 @@ source = GO::MULTI source = goslim_goa::MULTI source = InterproGO::MULTI source = Interpro::MULTI -source = RefSeq_dna::MULTI-vertebrate_mammalian -source = RefSeq_peptide::MULTI-vertebrate_mammalian +source = RefSeq_dna::tursiops_truncatus +source = RefSeq_peptide::tursiops_truncatus source = Uniprot/SPTREMBL::MULTI source = Uniprot/SWISSPROT::MULTI source = Uniprot/SWISSPROT::DIRECT -- GitLab