Zebra finch (Taeniopygia guttata) added.

misc-scripts/xref_mapping/xref_config.ini

@@ -393,7 +393,7 @@ data_uri        = ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/current/
 #data_uri        = ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/current/gff/dmel-all-*.gff.gz
 
 [source EntrezGene::MULTI]
-# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, caenorhabditis_elegans, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, drosophila_melanogaster, echinops_telfairi, erinaceus_europaeus, equus_caballus, felis_catus, gallus_gallus, gasterosteus_aculeatus, gorilla_gorilla, homo_sapiens, loxodonta_africana, macaca_mulatta, monodelphis_domestica, mus_musculus, myotis_lucifugus, ochotona_princeps, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes, pongo_pygmaeus,  rattus_norvegicus, saccharomyces_cerevisiae, spermophilus_tridecemlineatus, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis
+# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, caenorhabditis_elegans, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, drosophila_melanogaster, echinops_telfairi, erinaceus_europaeus, equus_caballus, felis_catus, gallus_gallus, gasterosteus_aculeatus, gorilla_gorilla, homo_sapiens, loxodonta_africana, macaca_mulatta, monodelphis_domestica, mus_musculus, myotis_lucifugus, ochotona_princeps, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes, pongo_pygmaeus,  rattus_norvegicus, saccharomyces_cerevisiae, spermophilus_tridecemlineatus, taeniopygia_guttata, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis
 name            = EntrezGene
 download        = Y
 order           = 10
@@ -549,7 +549,7 @@ data_uri        = ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/current/
 
 
 [source GO::MULTI]
-# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, canis_familiaris, ciona_intestinalis, ciona_savignyi, dasypus_novemcinctus, drosophila_melanogaster, echinops_telfairi, erinaceus_europaeus, equus_caballus, felis_catus, gallus_gallus, gasterosteus_aculeatus, loxodonta_africana, macaca_mulatta, monodelphis_domestica, myotis_lucifugus, ochotona_princeps, ornithorhynchus_anatinus, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes, pongo_pygmaeus,saccharomyces_cerevisiae, spermophilus_tridecemlineatus, takifugu_rubripes, tupaia_belangeri
+# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, canis_familiaris, ciona_intestinalis, ciona_savignyi, dasypus_novemcinctus, drosophila_melanogaster, echinops_telfairi, erinaceus_europaeus, equus_caballus, felis_catus, gallus_gallus, gasterosteus_aculeatus, loxodonta_africana, macaca_mulatta, monodelphis_domestica, myotis_lucifugus, ochotona_princeps, ornithorhynchus_anatinus, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes, pongo_pygmaeus,saccharomyces_cerevisiae, spermophilus_tridecemlineatus, taeniopygia_guttata, takifugu_rubripes, tupaia_belangeri
 name            = GO
 download        = Y
 order           = 80
@@ -917,7 +917,7 @@ release_uri     =
 data_uri        = file:Illumina_V2/Human-6_v2_sequence.csv
 
 [source Interpro::MULTI]
-# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, caenorhabditis_elegans, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, echinops_telfairi, erinaceus_europaeus, equus_caballus, felis_catus, gallus_gallus, gasterosteus_aculeatus, homo_sapiens, loxodonta_africana, macaca_mulatta, monodelphis_domestica, mus_musculus, myotis_lucifugus, ochotona_princeps, ornithorhynchus_anatinus, oryctolagus_cuniculus, pan_troglodytes,pongo_pygmaeus, oryzias_latipes, rattus_norvegicus, saccharomyces_cerevisiae, spermophilus_tridecemlineatus, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis
+# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, caenorhabditis_elegans, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, echinops_telfairi, erinaceus_europaeus, equus_caballus, felis_catus, gallus_gallus, gasterosteus_aculeatus, homo_sapiens, loxodonta_africana, macaca_mulatta, monodelphis_domestica, mus_musculus, myotis_lucifugus, ochotona_princeps, ornithorhynchus_anatinus, oryctolagus_cuniculus, pan_troglodytes,pongo_pygmaeus, oryzias_latipes, rattus_norvegicus, saccharomyces_cerevisiae, spermophilus_tridecemlineatus, taeniopygia_guttata, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis
 name            = Interpro
 download        = Y
 order           = 70
@@ -1091,7 +1091,7 @@ release_uri     = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-rel
 data_uri        = ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_mammalian/vertebrate_mammalian*.rna.fna.gz
 
 [source RefSeq_dna::MULTI-vertebrate_other]
-# Used by ciona_intestinalis, ciona_savignyi, gasterosteus_aculeatus, oryzias_latipes, takifugu_rubripes, xenopus_tropicalis
+# Used by ciona_intestinalis, ciona_savignyi, gasterosteus_aculeatus, oryzias_latipes, taeniopygia_guttata, takifugu_rubripes, xenopus_tropicalis
 name            = RefSeq_dna
 download        = Y
 order           = 20
@@ -1302,7 +1302,7 @@ release_uri     = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-rel
 data_uri        = ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_mammalian/vertebrate_mammalian*.protein.gpff.gz
 
 [source RefSeq_peptide::MULTI-vertebrate_other]
-# Used by ciona_intestinalis, ciona_savignyi, gasterosteus_aculeatus, oryzias_latipes, takifugu_rubripes, xenopus_tropicalis
+# Used by ciona_intestinalis, ciona_savignyi, gasterosteus_aculeatus, oryzias_latipes, taeniopygia_guttata, takifugu_rubripes, xenopus_tropicalis
 name            = RefSeq_peptide
 download        = Y
 order           = 20
@@ -1668,6 +1668,18 @@ release_uri     = ftp://ftp.ncbi.nih.gov/repository/UniGene/*.LOG
 data_uri        = ftp://ftp.ncbi.nih.gov/repository/UniGene/Rattus_norvegicus/Rn.seq.uniq.gz
 data_uri        = ftp://ftp.ncbi.nih.gov/repository/UniGene/Rattus_norvegicus/Rn.data.gz
 
+[source UniGene::taeniopygia_guttata]
+# Used by taeniopygia_guttata
+name            = UniGene
+download        = Y
+order           = 30
+priority        = 1
+prio_descr      =
+parser          = UniGeneParser
+release_uri     = ftp://ftp.ncbi.nih.gov/repository/UniGene/*.LOG
+data_uri        = ftp://ftp.ncbi.nih.gov/repository/UniGene/Taeniopygia_guttata/Tgu.seq.uniq.gz
+data_uri        = ftp://ftp.ncbi.nih.gov/repository/UniGene/Taeniopygia_guttata/Tgu.data.gz
+
 [source UniGene::takifugu_rubripes]
 # Used by takifugu_rubripes
 name            = UniGene
@@ -1723,7 +1735,7 @@ parser          = UniProtParser
 release_uri     =
 
 [source Uniprot/SPTREMBL::MULTI]
-# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, caenorhabditis_elegans, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, echinops_telfairi, erinaceus_europaeus, equus_caballus, felis_catus, gallus_gallus, gasterosteus_aculeatus, homo_sapiens, loxodonta_africana, macaca_mulatta, monodelphis_domestica, mus_musculus, myotis_lucifugus, ochotona_princeps, ornithorhynchus_anatinus, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes,pongo_pygmaeus, rattus_norvegicus, saccharomyces_cerevisiae, spermophilus_tridecemlineatus, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis
+# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, caenorhabditis_elegans, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, echinops_telfairi, erinaceus_europaeus, equus_caballus, felis_catus, gallus_gallus, gasterosteus_aculeatus, homo_sapiens, loxodonta_africana, macaca_mulatta, monodelphis_domestica, mus_musculus, myotis_lucifugus, ochotona_princeps, ornithorhynchus_anatinus, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes,pongo_pygmaeus, rattus_norvegicus, saccharomyces_cerevisiae, spermophilus_tridecemlineatus, taeniopygia_guttata, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis
 name            = Uniprot/SPTREMBL
 download        = Y
 order           = 20
@@ -1744,7 +1756,7 @@ parser          = UniProtParser
 release_uri     =
 
 [source Uniprot/SWISSPROT::MULTI]
-# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, caenorhabditis_elegans, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, echinops_telfairi, erinaceus_europaeus, felis_catus, gallus_gallus, gasterosteus_aculeatus, homo_sapiens, loxodonta_africana, macaca_mulatta, monodelphis_domestica, mus_musculus, myotis_lucifugus, ochotona_princeps, ornithorhynchus_anatinus, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes, pongo_pygmaeus, rattus_norvegicus, saccharomyces_cerevisiae, spermophilus_tridecemlineatus, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis
+# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, caenorhabditis_elegans, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, echinops_telfairi, erinaceus_europaeus, felis_catus, gallus_gallus, gasterosteus_aculeatus, homo_sapiens, loxodonta_africana, macaca_mulatta, monodelphis_domestica, mus_musculus, myotis_lucifugus, ochotona_princeps, ornithorhynchus_anatinus, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes, pongo_pygmaeus, rattus_norvegicus, saccharomyces_cerevisiae, spermophilus_tridecemlineatus, taeniopygia_guttata, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis
 name            = Uniprot/SWISSPROT
 download        = Y
 order           = 20
@@ -1787,7 +1799,7 @@ release_uri     = ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase/reldat
 data_uri        = ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase/uniprot_trembl.dat.gz
 
 [source Uniprot/Varsplic::MULTI]
-# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, caenorhabditis_elegans, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, echinops_telfairi, erinaceus_europaeus, felis_catus, gallus_gallus, gasterosteus_aculeatus, homo_sapiens, loxodonta_africana, monodelphis_domestica, mus_musculus, myotis_lucifugus, ochotona_princeps, ornithorhynchus_anatinus, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes, pongo_pygmaeus,rattus_norvegicus, saccharomyces_cerevisiae, spermophilus_tridecemlineatus, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis
+# Used by aedes_aegypti, anopheles_gambiae, apis_mellifera, bos_taurus, caenorhabditis_elegans, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, echinops_telfairi, erinaceus_europaeus, felis_catus, gallus_gallus, gasterosteus_aculeatus, homo_sapiens, loxodonta_africana, monodelphis_domestica, mus_musculus, myotis_lucifugus, ochotona_princeps, ornithorhynchus_anatinus, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes, pongo_pygmaeus,rattus_norvegicus, saccharomyces_cerevisiae, spermophilus_tridecemlineatus, taeniopygia_guttata, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis
 name            = Uniprot/Varsplic
 download        = Y
 order           = 30
@@ -2942,6 +2954,20 @@ source          = Uniprot/SWISSPROT::MULTI
 source          = Uniprot/Varsplic::MULTI
 source          = ncRNA::spermophilus_tridecemlineatus
 
+[species taeniopygia_guttata]
+taxonomy_id     = 59729
+aliases         = zebrafinch, zebra_finch, taeniopygiaguttata, tguttata, poephila_guttata, taenopygia_guttata, poephilaguttata, taenopygiaguttata
+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          = UniGene::taeniopygia_guttata
+source          = Uniprot/SPTREMBL::MULTI
+source          = Uniprot/SWISSPROT::MULTI
+source          = Uniprot/Varsplic::MULTI
+
 [species takifugu_rubripes]
 taxonomy_id     = 31033
 aliases         = frubripes, fugu, fugu_rubripes, fugurubripes, pufferfish