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Commit f64a16f7 authored by Magali Ruffier's avatar Magali Ruffier
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added UniGene source for stickleback

removed source RefSeq_dna::gasterosteus_aculeatus
it is a duplicate of RefSeq_dna::vertebrate-other

removed ciona sources for JGI version
it is a bad assembly which should not be referred to
parent 3f48ea35
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......@@ -1837,18 +1837,6 @@ release_uri = ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-rel
data_uri = ftp://ftp.ncbi.nih.gov/genomes/Gallus_gallus/RNA/rna.gbk.gz
[source RefSeq_dna::gasterosteus_aculeatus]
# Used by gasterosteus_aculeatus
name = RefSeq_dna
download = Y
order = 20
priority = 2
prio_descr = refseq
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/sequences.fasta.gz
[source RefSeq_dna::homo_sapiens]
# Used by homo_sapiens
name = RefSeq_dna
......@@ -2373,6 +2361,18 @@ release_uri = ftp://ftp.ncbi.nih.gov/repository/UniGene/*.LOG
data_uri = ftp://ftp.ncbi.nih.gov/repository/UniGene/Oryzias_latipes/Ola.seq.uniq.gz
data_uri = ftp://ftp.ncbi.nih.gov/repository/UniGene/Oryzias_latipes/Ola.data.gz
[source UniGene::gasterosteus_aculeatus]
# Used by oryzias_latipes
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/Gasterosteus_aculeatus/Gac.seq.uniq.gz
data_uri = ftp://ftp.ncbi.nih.gov/repository/UniGene/Gasterosteus_aculeatus/Gac.data.gz
[source UniGene::aedes_aegypti]
# Used by aedes_aegypti
name = UniGene
......@@ -3335,17 +3335,6 @@ parser = JGI_ProteinParser
release_uri =
data_uri = ftp://ftp.jgi-psf.org/pub/JGI_data/Ciona/v1.0/ciona.prot.fasta.gz
[source cint_aniseed_v2::ciona_intestinalis]
# Used by ciona_intestinalis
name = cint_aniseed_v2
download = Y
order = 50
priority = 1
prio_descr =
parser = JGI_ProteinParser
release_uri =
data_uri = ftp://ftp.jgi-psf.org/pub/JGI_data/Ciona/v2.0/FM1.aa.fasta.gz
[source cint_jgi_v1::ciona_intestinalis]
# Used by ciona_intestinalis
name = cint_jgi_v1
......@@ -3357,18 +3346,6 @@ parser = JGI_ProteinParser
release_uri =
data_uri = ftp://ftp.jgi-psf.org/pub/JGI_data/Ciona/v1.0/ciona.prot.fasta.gz
[source cint_jgi_v2::ciona_intestinalis]
# Used by ciona_intestinalis
name = cint_jgi_v2
download = Y
order = 50
priority = 1
prio_descr =
parser = JGI_ProteinParser
release_uri =
data_uri = ftp://ftp.jgi-psf.org/pub/JGI_data/Ciona/v2.0/FM1.aa.fasta.gz
[source RFAM::MULTI]
# Used by bos_taurus, canis_familiaris, ciona_intestinalis, ciona_savignyi, danio_rerio, dasypus_novemcinctus, drosophila_pseudoobscura, erinaceus_europaeus, gallus_gallus, gasterosteus_aculeatus, homo_sapiens, loxodonta_africana, macaca_mulatta, monodelphis_domestica, mus_musculus, myotis_lucifugus, oryctolagus_cuniculus, oryzias_latipes, pan_troglodytes,pongo_abelii, rattus_norvegicus, ictidomys_tridecemlineatus, takifugu_rubripes, tupaia_belangeri, xenopus_tropicalis, ornithorhynchus_anatinus
name = RFAM
......@@ -4632,9 +4609,7 @@ source = UniProt::protein_id
source = Uniprot::EMBL
source = UniParc::MULTI
source = cint_aniseed_v1::ciona_intestinalis
source = cint_aniseed_v2::ciona_intestinalis
source = cint_jgi_v1::ciona_intestinalis
source = cint_jgi_v2::ciona_intestinalis
source = RFAM::MULTI
source = miRBase::MULTI
source = ArrayExpress::MULTI
......@@ -5068,8 +5043,8 @@ source = goslim_goa::MULTI
source = InterproGO::MULTI
source = Interpro::MULTI
source = RefSeq_dna::MULTI-vertebrate_other
source = RefSeq_dna::gasterosteus_aculeatus
source = RefSeq_peptide::MULTI-vertebrate_other
source = UniGene::gasterosteus_aculeatus
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/SWISSPROT::DIRECT
......
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