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```#+ summary: Get genomic features given an interval. #+ tags: #+ - Get genomic features given an interval #+ enumerate: #+ - graph: #+ - http://solgenomics.net/genome/Solanum_lycopersicum #+ - http://solgenomics.net/genome/Solanum_pennellii #+ - http://solgenomics.net/genome/Solanum_tuberosum #+ defaults: #+ - chrom: "chromosome 10" #+ - begin: "58895882" #+ - end: "59082990" #+ - feature: "'protein_coding_gene'" PREFIX rdf: PREFIX rdfs: PREFIX owl: PREFIX dcterms: PREFIX obo: PREFIX faldo: PREFIX xsd: PREFIX bif: SELECT * WHERE { GRAPH ?_graph_iri { SELECT ?feature_id ?feature_name (?_chrom_xsd_string AS ?chrom) ?begin_pos ?end_pos WHERE { GRAPH { ?feature_type a owl:Class ; rdfs:label ?feature_name . ?feature_name bif:contains ?_feature_xsd_string . } ?feature a ?feature_type ; dcterms:identifier ?feature_id ; faldo:location ?loc . ?loc faldo:begin ?begin ; faldo:end ?end . ?begin faldo:position ?begin_pos ; faldo:reference/rdfs:label ?_chrom_xsd_string . ?end faldo:position ?end_pos ; faldo:reference/rdfs:label ?_chrom_xsd_string . } } FILTER(?begin_pos >= ?_begin_xsd_integer && ?end_pos <= ?_end_xsd_integer) } ```

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  • ```#+ summary: Get genomic features given an interval. #+ tags: #+ - Get genomic features given an interval #+ enumerate: #+ - graph: #+ - http://solgenomics.net/genome/Solanum_lycopersicum #+ - http://solgenomics.net/genome/Solanum_pennellii #+ - http://solgenomics.net/genome/Solanum_tuberosum #+ defaults: #+ - chrom: "chromosome 10" #+ - begin: "58895882" #+ - end: "59082990" #+ - feature: "'protein_coding_gene'" PREFIX rdf: PREFIX rdfs: PREFIX owl: PREFIX dcterms: PREFIX obo: PREFIX faldo: PREFIX xsd: PREFIX bif: SELECT * WHERE { GRAPH ?_graph_iri { SELECT ?feature_id ?feature_name (?_chrom_xsd_string AS ?chrom) ?begin_pos ?end_pos WHERE { GRAPH { ?feature_type a owl:Class ; rdfs:label ?feature_name . ?feature_name bif:contains ?_feature_xsd_string . } ?feature a ?feature_type ; dcterms:identifier ?feature_id ; faldo:location ?loc . ?loc faldo:begin ?begin ; faldo:end ?end . ?begin faldo:position ?begin_pos ; faldo:reference/rdfs:label ?_chrom_xsd_string . ?end faldo:position ?end_pos ; faldo:reference/rdfs:label ?_chrom_xsd_string . } } FILTER(?begin_pos >= ?_begin_xsd_integer && ?end_pos <= ?_end_xsd_integer) } ```
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  • Get genomic features given an interval.
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