PREFIX owl: PREFIX rdf: PREFIX rdfs: PREFIX xsd: PREFIX GENO: PREFIX IAO: PREFIX NCIT: PREFIX OBI: PREFIX PATO: PREFIX biolink: PREFIX bioschemas: PREFIX example: PREFIX linkml: PREFIX opencloning_linkml: PREFIX schema: PREFIX dcterms: PREFIX skos: PREFIX sh: PREFIX vann: a owl:Ontology ; rdfs:label "OpenCloning_LinkML" ; rdfs:comment "A LinkML data model for OpenCloning" ; rdfs:seeAlso ; dcterms:license "MIT" ; vann:preferredNamespacePrefix "opencloning_linkml" ; vann:preferredNamespaceUri "https://opencloning.github.io/OpenCloning_LinkML/"^^xsd:anyURI ; sh:declare [ sh:prefix "GENO" ; sh:namespace "http://purl.obolibrary.org/obo/GENO_"^^xsd:anyURI ] , [ sh:prefix "IAO" ; sh:namespace "http://purl.obolibrary.org/obo/IAO_"^^xsd:anyURI ] , [ sh:prefix "NCIT" ; sh:namespace "http://purl.obolibrary.org/obo/NCIT_"^^xsd:anyURI ] , [ sh:prefix "OBI" ; sh:namespace "http://purl.obolibrary.org/obo/OBI_"^^xsd:anyURI ] , [ sh:prefix "PATO" ; sh:namespace "http://purl.obolibrary.org/obo/PATO_"^^xsd:anyURI ] , [ sh:prefix "biolink" ; sh:namespace "https://w3id.org/biolink/"^^xsd:anyURI ] , [ sh:prefix "bioschemas" ; sh:namespace "https://bioschemas.org/"^^xsd:anyURI ] , [ sh:prefix "example" ; sh:namespace "https://example.org/"^^xsd:anyURI ] , [ sh:prefix "linkml" ; sh:namespace "https://w3id.org/linkml/"^^xsd:anyURI ] , [ sh:prefix "opencloning_linkml" ; sh:namespace "https://opencloning.github.io/OpenCloning_LinkML/"^^xsd:anyURI ] , [ sh:prefix "schema" ; sh:namespace "http://schema.org/"^^xsd:anyURI ] . opencloning_linkml:AddgeneIdSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is identified by an Addgene id" ; rdfs:subClassOf opencloning_linkml:RepositoryIdSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_url ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o14 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_url ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:addgene_sequence_type ; owl:allValuesFrom opencloning_linkml:AddgeneSequenceType ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:addgene_sequence_type ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . _:o14 xsd:pattern "https?:\\/\\/(www\\.)?[-a-zA-Z0-9@:%._\\+~#=]{1,256}\\.[a-zA-Z0-9()]{1,6}\\b([-a-zA-Z0-9()@:%_\\+.~#?&//=]*)" . opencloning_linkml:AnnotationReport a owl:Class ; rdfs:comment "Represents a report of an annotation step" ; rdfs:subClassOf [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:AnnotationSource a owl:Class ; rdfs:comment "Represents a computational step in which sequence features are annotated in a sequence" ; rdfs:subClassOf schema:CreateAction , [ a owl:Restriction ; owl:onProperty opencloning_linkml:annotation_report ; owl:allValuesFrom opencloning_linkml:AnnotationReport ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:annotation_tool ; owl:allValuesFrom opencloning_linkml:AnnotationTool ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:annotation_tool ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:annotation_tool_version ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:annotation_tool_version ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:AssemblyFragment a owl:Class ; rdfs:comment "Represents a fragment in an assembly" ; rdfs:subClassOf schema:Role , [ a owl:Restriction ; owl:onProperty opencloning_linkml:left_location ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o27 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:left_location ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:reverse_complemented ; owl:allValuesFrom xsd:boolean ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:reverse_complemented ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:right_location ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o33 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:right_location ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . _:o27 xsd:pattern "(\\d+)\\.\\.(\\d+)" . _:o33 xsd:pattern "(\\d+)\\.\\.(\\d+)" . opencloning_linkml:AssemblySource a owl:Class ; rdfs:comment "Represents the source of a sequence that is an assembly of other sequences" ; rdfs:subClassOf schema:CreateAction , [ a owl:Restriction ; owl:onProperty opencloning_linkml:circular ; owl:allValuesFrom xsd:boolean ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:circular ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:AssociatedFile a owl:Class ; rdfs:comment "Represents a file associated with a sequence" ; rdfs:subClassOf [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:file_name ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:file_name ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:file_type ; owl:allValuesFrom opencloning_linkml:AssociatedFileType ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:file_type ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_id ; owl:allValuesFrom bioschemas:DNA ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_id ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:BenchlingUrlSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is identified by a Benchling URL" ; rdfs:subClassOf opencloning_linkml:RepositoryIdSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:repository_id ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:CrisprSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by CRISPR" ; rdfs:subClassOf opencloning_linkml:HomologousRecombinationSource . opencloning_linkml:CloningStrategy a owl:Class ; rdfs:comment "Represents a cloning strategy" ; rdfs:subClassOf [ a owl:Restriction ; owl:onProperty opencloning_linkml:backend_version ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:backend_version ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:description ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:description ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:files ; owl:allValuesFrom opencloning_linkml:AssociatedFile ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:frontend_version ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:frontend_version ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:primers ; owl:allValuesFrom opencloning_linkml:Primer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:schema_version ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:schema_version ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequences ; owl:allValuesFrom bioschemas:DNA ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequences ; owl:minCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sources ; owl:allValuesFrom schema:CreateAction ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sources ; owl:minCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:CollectionOption a owl:Class ; rdfs:comment "Represents an option in a collection" ; rdfs:subClassOf [ a owl:Restriction ; owl:onProperty schema:name ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty schema:name ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:info ; owl:allValuesFrom opencloning_linkml:CollectionOptionInfo ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:info ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:source ; owl:allValuesFrom schema:CreateAction ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:source ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:CollectionOptionInfo a owl:Class ; rdfs:comment "Additional information about a collection option" ; rdfs:subClassOf [ a owl:Restriction ; owl:onProperty schema:name ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty schema:name ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:description ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:description ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:resistance ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:resistance ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:allValuesFrom opencloning_linkml:CollectionOptionType ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:well ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:well ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:CollectionSource a owl:Class ; rdfs:comment "Represents a collection of possible sources in a template" ; rdfs:subClassOf schema:CreateAction , [ a owl:Restriction ; owl:onProperty opencloning_linkml:category_id ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:category_id ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:description ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:description ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:image ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:options ; owl:allValuesFrom opencloning_linkml:CollectionOption ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:title ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:title ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:CreLoxRecombinationSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by Cre - Lox recombination" ; rdfs:subClassOf opencloning_linkml:AssemblySource . opencloning_linkml:DatabaseSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is identified by a database id" ; rdfs:subClassOf schema:CreateAction , [ a owl:Restriction ; owl:onProperty schema:identifier ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty schema:identifier ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:EuroscarfSource a owl:Class ; rdfs:comment "Represents the source of a sequence from the Euroscarf plasmid library" ; rdfs:subClassOf opencloning_linkml:RepositoryIdSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:repository_id ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:GatewaySource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by Gateway cloning" ; rdfs:subClassOf opencloning_linkml:AssemblySource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:greedy ; owl:allValuesFrom xsd:boolean ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:greedy ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:reaction_type ; owl:allValuesFrom opencloning_linkml:GatewayReactionType ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:reaction_type ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:GenomeCoordinatesSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is identified by genome coordinates, requested from NCBI" ; rdfs:subClassOf opencloning_linkml:NcbiSequenceSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:assembly_accession ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:assembly_accession ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:gene_id ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:gene_id ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:locus_tag ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:locus_tag ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:GibsonAssemblySource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by Gibson assembly" ; rdfs:subClassOf opencloning_linkml:AssemblySource . opencloning_linkml:HomologousRecombinationSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by homologous recombination" ; rdfs:subClassOf opencloning_linkml:AssemblySource . opencloning_linkml:IgemSource a owl:Class ; rdfs:comment "Represents the source of a sequence from an iGEM collection" ; rdfs:subClassOf opencloning_linkml:RepositoryIdSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_url ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o99 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_url ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:repository_id ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . _:o99 xsd:pattern ".*.gb" . opencloning_linkml:InFusionSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by In-Fusion cloning by Takara Bio" ; rdfs:subClassOf opencloning_linkml:AssemblySource . opencloning_linkml:InVivoAssemblySource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by in vivo assembly. Algorithmically equivalent to Gibson assembly." ; rdfs:subClassOf opencloning_linkml:AssemblySource . opencloning_linkml:LigationSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by ligation with sticky or blunt ends." ; rdfs:subClassOf opencloning_linkml:AssemblySource . opencloning_linkml:ManuallyTypedSequence a owl:Class ; rdfs:comment "Represents a sequence that is manually typed by the user" ; rdfs:subClassOf bioschemas:DNA , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang_crick_3_prime ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang_crick_3_prime ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang_watson_3_prime ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang_watson_3_prime ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:circular ; owl:allValuesFrom xsd:boolean ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:circular ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o110 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . _:o110 xsd:pattern "[acgtACGT]+" . opencloning_linkml:ManuallyTypedSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is manually typed by the user" ; rdfs:subClassOf schema:CreateAction . opencloning_linkml:NcbiSequenceSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is identified by an NCBI sequence accession" ; rdfs:subClassOf opencloning_linkml:RepositoryIdSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:coordinates ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o114 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:coordinates ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:repository_id ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . _:o114 xsd:pattern "((\\d+)\\.\\.(\\d+)|complement\\((\\d+)\\.\\.(\\d+)\\))" . schema:Thing a owl:Class . opencloning_linkml:OligoHybridizationSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by oligo hybridization" ; rdfs:subClassOf schema:CreateAction , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang_crick_3_prime ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang_crick_3_prime ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:OpenDnaCollectionsSource a owl:Class ; rdfs:comment "Represents the source of a sequence from the Open DNA collections" ; rdfs:subClassOf opencloning_linkml:RepositoryIdSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_url ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o121 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_url ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:repository_id ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . _:o121 xsd:pattern "https?:\\/\\/(www\\.)?[-a-zA-Z0-9@:%._\\+~#=]{1,256}\\.[a-zA-Z0-9()]{1,6}\\b([-a-zA-Z0-9()@:%_\\+.~#?&//=]*)" . opencloning_linkml:OverlapExtensionPcrLigationSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by ligation of PCR products as part of overlap extension PCR. Algorithmically equivalent to Gibson assembly." ; rdfs:subClassOf opencloning_linkml:AssemblySource . opencloning_linkml:PcrSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by PCR" ; rdfs:subClassOf opencloning_linkml:AssemblySource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:add_primer_features ; owl:allValuesFrom xsd:boolean ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:add_primer_features ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:PlannotateAnnotationReport a owl:Class ; rdfs:comment "Represents a report of an annotation step using Plannotate" ; rdfs:subClassOf opencloning_linkml:AnnotationReport , [ a owl:Restriction ; owl:onProperty opencloning_linkml:description ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:description ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:feature ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:feature ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:database ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:database ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:end_location ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:end_location ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:fragment ; owl:allValuesFrom xsd:boolean ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:fragment ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:full_length_of_feature_in_db ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:full_length_of_feature_in_db ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:length_of_found_feature ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:length_of_found_feature ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:percent_identity ; owl:allValuesFrom xsd:float ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:percent_identity ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:percent_match_length ; owl:allValuesFrom xsd:float ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:percent_match_length ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sseqid ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sseqid ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:start_location ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:start_location ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:strand ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:strand ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:PolymeraseExtensionSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by polymerase extension" ; rdfs:subClassOf schema:CreateAction . opencloning_linkml:Primer a owl:Class ; rdfs:comment "An oligonucleotide or primer" ; rdfs:subClassOf bioschemas:DNA , [ a owl:Restriction ; owl:onProperty schema:name ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty schema:name ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty schema:identifier ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty schema:identifier ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o160 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . _:o160 xsd:pattern "[acgtACGT]+" . opencloning_linkml:Recombinase a owl:Class ; rdfs:subClassOf [ a owl:Restriction ; owl:onProperty schema:name ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty schema:name ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:site_1 ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o166 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:site_1 ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:site_1_name ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:site_1_name ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:site_2 ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o172 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:site_2 ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:site_2_name ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:site_2_name ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . _:o166 xsd:pattern "[A-Z]+[a-z]+[A-Z]+" . _:o172 xsd:pattern "[A-Z]+[a-z]+[A-Z]+" . opencloning_linkml:RecombinaseSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by recombination using one or more recombinases" ; rdfs:subClassOf opencloning_linkml:AssemblySource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:recombinases ; owl:allValuesFrom opencloning_linkml:Recombinase ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:recombinases ; owl:minCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:RepositoryIdSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is identified by a repository id" ; rdfs:subClassOf schema:CreateAction , [ a owl:Restriction ; owl:onProperty opencloning_linkml:repository_id ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:repository_id ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:RestrictionAndLigationSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is generated by restriction and ligation" ; rdfs:subClassOf opencloning_linkml:AssemblySource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:restriction_enzymes ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:restriction_enzymes ; owl:minCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:RestrictionEnzymeDigestionSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is a subfragment of another sequence, generated by sequence cutting using restriction enzymes." ; rdfs:subClassOf opencloning_linkml:SequenceCutSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:left_edge ; owl:allValuesFrom opencloning_linkml:RestrictionSequenceCut ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:left_edge ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:right_edge ; owl:allValuesFrom opencloning_linkml:RestrictionSequenceCut ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:right_edge ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:RestrictionSequenceCut a owl:Class ; rdfs:comment "Represents a cut in a DNA sequence that is made by a restriction enzyme" ; rdfs:subClassOf opencloning_linkml:SequenceCut , [ a owl:Restriction ; owl:onProperty opencloning_linkml:restriction_enzyme ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:restriction_enzyme ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:ReverseComplementSource a owl:Class ; rdfs:comment "Represents the in-silico transformation of a sequence into its reverse complement" ; rdfs:subClassOf schema:CreateAction . opencloning_linkml:SevaSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is identified by a SEVA id" ; rdfs:subClassOf opencloning_linkml:RepositoryIdSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_url ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o190 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_url ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:repository_id ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . _:o190 xsd:pattern "https?:\\/\\/(www\\.)?[-a-zA-Z0-9@:%._\\+~#=]{1,256}\\.[a-zA-Z0-9()]{1,6}\\b([-a-zA-Z0-9()@:%_\\+.~#?&//=]*)" . bioschemas:DNA a owl:Class ; rdfs:comment "Represents a sequence" ; rdfs:subClassOf schema:Thing , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Class ; owl:unionOf ( opencloning_linkml:ManuallyTypedSequence opencloning_linkml:Primer opencloning_linkml:TemplateSequence opencloning_linkml:TextFileSequence ) ] . opencloning_linkml:SequenceCut a owl:Class ; rdfs:comment "Represents a cut in a DNA sequence" ; rdfs:subClassOf [ a owl:Restriction ; owl:onProperty opencloning_linkml:cut_watson ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:cut_watson ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:SequenceCutSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is a subfragment of another sequence, generated by sequence cutting." ; rdfs:subClassOf schema:CreateAction , [ a owl:Restriction ; owl:onProperty opencloning_linkml:left_edge ; owl:allValuesFrom opencloning_linkml:SequenceCut ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:left_edge ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:right_edge ; owl:allValuesFrom opencloning_linkml:SequenceCut ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:right_edge ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:SequencingFile a owl:Class ; rdfs:comment "Represents a sequencing file and its alignment to a sequence" ; rdfs:subClassOf opencloning_linkml:AssociatedFile , [ a owl:Restriction ; owl:onProperty opencloning_linkml:alignment ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:alignment ; owl:minCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:SnapGenePlasmidSource a owl:Class ; rdfs:comment "Represents the source of a sequence from the SnapGene plasmid library identified by a SnapGene subpath of https://www.snapgene.com/plasmids/" ; rdfs:subClassOf opencloning_linkml:RepositoryIdSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:repository_id ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . schema:CreateAction a owl:Class ; rdfs:comment "Represents the source of a sequence" ; rdfs:subClassOf schema:Thing , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:output_name ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:output_name ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty schema:identifier ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty schema:identifier ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty schema:object ; owl:allValuesFrom schema:Role ] , [ a owl:Class ; owl:unionOf ( opencloning_linkml:AnnotationSource opencloning_linkml:AssemblySource opencloning_linkml:CollectionSource opencloning_linkml:DatabaseSource opencloning_linkml:ManuallyTypedSource opencloning_linkml:OligoHybridizationSource opencloning_linkml:PolymeraseExtensionSource opencloning_linkml:RepositoryIdSource opencloning_linkml:ReverseComplementSource opencloning_linkml:SequenceCutSource opencloning_linkml:UploadedFileSource ) ] . schema:Role a owl:Class ; rdfs:comment "Represents an input to a source" ; rdfs:subClassOf [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:type ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence ; owl:allValuesFrom bioschemas:DNA ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:TemplateSequence a owl:Class ; rdfs:comment "Represents a sequence that is part of a template, where the actual sequence content will be determined by the user's actions" ; rdfs:subClassOf bioschemas:DNA , [ a owl:Restriction ; owl:onProperty opencloning_linkml:circular ; owl:allValuesFrom xsd:boolean ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:circular ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:primer_design ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:primer_design ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:TextFileSequence a owl:Class ; rdfs:comment "A sequence (may have features) defined by the content of a text file" ; rdfs:subClassOf bioschemas:DNA , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_format ; owl:allValuesFrom opencloning_linkml:SequenceFileFormat ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_format ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang_crick_3_prime ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang_crick_3_prime ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang_watson_3_prime ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:overhang_watson_3_prime ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:file_content ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:file_content ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . opencloning_linkml:UploadedFileSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is uploaded as a file" ; rdfs:subClassOf schema:CreateAction , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_format ; owl:allValuesFrom opencloning_linkml:SequenceFileFormat ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_format ; owl:cardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:circularize ; owl:allValuesFrom xsd:boolean ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:circularize ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:coordinates ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o237 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:coordinates ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:file_name ; owl:allValuesFrom xsd:string ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:file_name ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:index_in_file ; owl:allValuesFrom xsd:integer ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:index_in_file ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] . _:o237 xsd:pattern "(\\d+)\\.\\.(\\d+)" . opencloning_linkml:WekWikGeneIdSource a owl:Class ; rdfs:comment "Represents the source of a sequence that is identified by a WeKwikGene id" ; rdfs:subClassOf opencloning_linkml:RepositoryIdSource , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_url ; owl:allValuesFrom [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o245 ) ] ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:sequence_file_url ; owl:maxCardinality "1"^^xsd:nonNegativeInteger ] , [ a owl:Restriction ; owl:onProperty opencloning_linkml:repository_id ; owl:cardinality "1"^^xsd:nonNegativeInteger ] . _:o245 xsd:pattern "https?:\\/\\/(www\\.)?[-a-zA-Z0-9@:%._\\+~#=]{1,256}\\.[a-zA-Z0-9()]{1,6}\\b([-a-zA-Z0-9()@:%_\\+.~#?&//=]*)" . schema:identifier a owl:DatatypeProperty ; rdfs:comment "The id of an entity in a database" ; rdfs:range xsd:integer ; a owl:FunctionalProperty . schema:name a owl:DatatypeProperty ; rdfs:comment "A human-readable name for a thing" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:output_name a owl:DatatypeProperty ; rdfs:comment "Used to specify the name of the output sequence" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:overhang_crick_3_prime a owl:DatatypeProperty ; rdfs:comment "Taken from pydna's `dseq::ovhg`An integer describing the length of the crick strand overhang in the 5' of the molecule, or 3' of the crick strand" ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:overhang_watson_3_prime a owl:DatatypeProperty ; rdfs:comment "The equivalent of `overhang_crick_3prime` but for the watson strand" ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:repository_id a owl:DatatypeProperty ; rdfs:comment "The id of the sequence in the repository" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:restriction_enzyme a owl:DatatypeProperty ; skos:exactMatch OBI:0000732 ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:restriction_enzymes a owl:DatatypeProperty ; skos:exactMatch OBI:0000732 ; rdfs:range xsd:string . opencloning_linkml:sequence_file_format a owl:ObjectProperty ; rdfs:comment "The format of a sequence file" ; rdfs:range opencloning_linkml:SequenceFileFormat ; a owl:FunctionalProperty . opencloning_linkml:sequence_file_url a owl:DatatypeProperty ; rdfs:comment "The URL of a sequence file" ; rdfs:range [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o249 ) ] ; a owl:FunctionalProperty . _:o249 xsd:pattern "https?:\\/\\/(www\\.)?[-a-zA-Z0-9@:%._\\+~#=]{1,256}\\.[a-zA-Z0-9()]{1,6}\\b([-a-zA-Z0-9()@:%_\\+.~#?&//=]*)" . opencloning_linkml:type a owl:ObjectProperty ; rdfs:comment "Designates the class" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:addgene_sequence_type a owl:ObjectProperty ; rdfs:range opencloning_linkml:AddgeneSequenceType ; a owl:FunctionalProperty . opencloning_linkml:annotation_report a owl:ObjectProperty ; rdfs:range opencloning_linkml:AnnotationReport . opencloning_linkml:annotation_tool a owl:ObjectProperty ; rdfs:range opencloning_linkml:AnnotationTool ; a owl:FunctionalProperty . opencloning_linkml:annotation_tool_version a owl:DatatypeProperty ; rdfs:comment "The version of the annotation tool" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:left_location a owl:DatatypeProperty ; rdfs:range [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o251 ) ] ; a owl:FunctionalProperty . _:o251 xsd:pattern "(\\d+)\\.\\.(\\d+)" . opencloning_linkml:reverse_complemented a owl:DatatypeProperty ; rdfs:comment "Whether the sequence is reverse complemented in the assembly" ; rdfs:range xsd:boolean ; a owl:FunctionalProperty . opencloning_linkml:right_location a owl:DatatypeProperty ; rdfs:range [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o253 ) ] ; a owl:FunctionalProperty . _:o253 xsd:pattern "(\\d+)\\.\\.(\\d+)" . opencloning_linkml:circular a owl:DatatypeProperty ; rdfs:comment "Whether the assembly is circular or not" ; rdfs:range xsd:boolean ; a owl:FunctionalProperty . opencloning_linkml:file_name a owl:DatatypeProperty ; rdfs:comment "The name of the file" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:file_type a owl:ObjectProperty ; rdfs:comment "The type of file" ; rdfs:range opencloning_linkml:AssociatedFileType ; a owl:FunctionalProperty . opencloning_linkml:sequence_id a owl:ObjectProperty ; rdfs:comment "The sequence this file is associated with" ; rdfs:range bioschemas:DNA ; a owl:FunctionalProperty . opencloning_linkml:backend_version a owl:DatatypeProperty ; rdfs:comment "The version of the backend that was used to generate this cloning strategy" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:description a owl:DatatypeProperty ; rdfs:comment "A description of the cloning strategy" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:files a owl:ObjectProperty ; rdfs:comment "Files associated with this cloning strategy" ; rdfs:range opencloning_linkml:AssociatedFile . opencloning_linkml:frontend_version a owl:DatatypeProperty ; rdfs:comment "The version of the frontend that was used to generate this cloning strategy" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:primers a owl:ObjectProperty ; rdfs:comment "The primers that are used in the cloning strategy" ; rdfs:range opencloning_linkml:Primer . opencloning_linkml:schema_version a owl:DatatypeProperty ; rdfs:comment "The version of the schema that was used to generate this cloning strategy" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:sequences a owl:ObjectProperty ; rdfs:comment "The sequences that are used in the cloning strategy" ; rdfs:range bioschemas:DNA . opencloning_linkml:sources a owl:ObjectProperty ; rdfs:comment "The sources of the sequences that are used in the cloning strategy" ; rdfs:range schema:CreateAction . opencloning_linkml:info a owl:ObjectProperty ; rdfs:comment "Additional information about this option" ; rdfs:range opencloning_linkml:CollectionOptionInfo ; a owl:FunctionalProperty . opencloning_linkml:source a owl:ObjectProperty ; rdfs:comment "The source of the sequence for this option" ; rdfs:range schema:CreateAction ; a owl:FunctionalProperty . opencloning_linkml:resistance a owl:DatatypeProperty ; rdfs:comment "The antibiotic resistance of the plasmid" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:well a owl:DatatypeProperty ; rdfs:comment "The well position in the kit plate" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:category_id a owl:DatatypeProperty ; rdfs:comment "The identifier of the category of the part in the template" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:image a owl:DatatypeProperty ; rdfs:comment "URL and size of the image representing this category. For images with size specification, this is a list with two elements: [url, size]." ; rdfs:range xsd:string . opencloning_linkml:options a owl:ObjectProperty ; rdfs:comment "The options available in this category." ; rdfs:range opencloning_linkml:CollectionOption . opencloning_linkml:title a owl:DatatypeProperty ; rdfs:comment "The title of the category" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:greedy a owl:DatatypeProperty ; rdfs:comment "Whether to use a greedy consensus sequence for att sites (see https://github.com/manulera/GateWayMine)" ; rdfs:range xsd:boolean ; a owl:FunctionalProperty . opencloning_linkml:reaction_type a owl:ObjectProperty ; rdfs:range opencloning_linkml:GatewayReactionType ; a owl:FunctionalProperty . opencloning_linkml:assembly_accession a owl:DatatypeProperty ; rdfs:comment "The accession of the assembly" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:gene_id a owl:DatatypeProperty ; rdfs:comment "The gene id of the sequence" ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:locus_tag a owl:DatatypeProperty ; rdfs:comment "The locus tag of the sequence" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:sequence a owl:ObjectProperty ; rdfs:comment "The sequence of the manually typed sequence" ; a owl:FunctionalProperty . opencloning_linkml:coordinates a owl:DatatypeProperty ; rdfs:comment "If provided, represents the location of a subsequence within the sequence identified by the sequence accession." ; a owl:FunctionalProperty . opencloning_linkml:add_primer_features a owl:DatatypeProperty ; rdfs:comment "Whether to add primer features to the PCR product" ; rdfs:range xsd:boolean ; a owl:FunctionalProperty . opencloning_linkml:feature a owl:DatatypeProperty ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:database a owl:DatatypeProperty ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:end_location a owl:DatatypeProperty ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:fragment a owl:DatatypeProperty ; rdfs:range xsd:boolean ; a owl:FunctionalProperty . opencloning_linkml:full_length_of_feature_in_db a owl:DatatypeProperty ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:length_of_found_feature a owl:DatatypeProperty ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:percent_identity a owl:DatatypeProperty ; rdfs:range xsd:float ; a owl:FunctionalProperty . opencloning_linkml:percent_match_length a owl:DatatypeProperty ; rdfs:range xsd:float ; a owl:FunctionalProperty . opencloning_linkml:sseqid a owl:DatatypeProperty ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:start_location a owl:DatatypeProperty ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:strand a owl:DatatypeProperty ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:site_1 a owl:DatatypeProperty ; rdfs:range [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o255 ) ] ; a owl:FunctionalProperty . _:o255 xsd:pattern "[A-Z]+[a-z]+[A-Z]+" . opencloning_linkml:site_1_name a owl:DatatypeProperty ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:site_2 a owl:DatatypeProperty ; rdfs:range [ a rdfs:Datatype ; owl:onDatatype xsd:string ; owl:withRestrictions ( _:o257 ) ] ; a owl:FunctionalProperty . _:o257 xsd:pattern "[A-Z]+[a-z]+[A-Z]+" . opencloning_linkml:site_2_name a owl:DatatypeProperty ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:recombinases a owl:ObjectProperty ; rdfs:range opencloning_linkml:Recombinase . opencloning_linkml:left_edge a owl:ObjectProperty , owl:FunctionalProperty . opencloning_linkml:right_edge a owl:ObjectProperty , owl:FunctionalProperty . opencloning_linkml:cut_watson a owl:DatatypeProperty ; rdfs:comment "The position of the cut in the watson strand. The cut is made before the base at this position (zero-based), so that cut position 1 cuts after the first base." ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:overhang a owl:DatatypeProperty ; rdfs:comment "The length of the overhang that is left after the cut. It can be negative, same meaning as in pydna's `dseq::ovhg` and biopython's `Bio.Restriction.RestrictionType.ovhg`." ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:alignment a owl:DatatypeProperty ; rdfs:comment "The alignment of the sequencing read to the sequence. List of strings representing aligned sequences." ; rdfs:range xsd:string . schema:object a owl:ObjectProperty ; rdfs:comment "The inputs to this source. If the source represents external import of a sequence, it's empty." ; rdfs:range schema:Role . opencloning_linkml:primer_design a owl:DatatypeProperty ; rdfs:comment "Can be used to indicate the intended primer design for this sequence in the template" ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:file_content a owl:DatatypeProperty ; rdfs:range xsd:string ; a owl:FunctionalProperty . opencloning_linkml:circularize a owl:DatatypeProperty ; rdfs:comment "Whether the sequence should be circularized (FASTA only)" ; rdfs:range xsd:boolean ; a owl:FunctionalProperty . opencloning_linkml:index_in_file a owl:DatatypeProperty ; rdfs:comment "The index of the sequence in the file" ; rdfs:range xsd:integer ; a owl:FunctionalProperty . opencloning_linkml:AddgeneSequenceType a owl:Class ; owl:equivalentClass [ a owl:Class ; owl:oneOf ( opencloning_linkml:AddgeneSequenceType.ADDGENE_FULL opencloning_linkml:AddgeneSequenceType.DEPOSITOR_FULL ) ] . opencloning_linkml:AddgeneSequenceType.ADDGENE_FULL a owl:NamedIndividual ; skos:notation "addgene-full" ; rdfs:comment "Full sequence of the plasmid performed by Addgene" ; a opencloning_linkml:AddgeneSequenceType . opencloning_linkml:AddgeneSequenceType.DEPOSITOR_FULL a owl:NamedIndividual ; skos:notation "depositor-full" ; rdfs:comment "Full sequence of the plasmid submitted by the depositor" ; a opencloning_linkml:AddgeneSequenceType . opencloning_linkml:AnnotationTool a owl:Class ; owl:equivalentClass [ a owl:Class ; owl:oneOf ( opencloning_linkml:AnnotationTool.PLANNOTATE ) ] . opencloning_linkml:AnnotationTool.PLANNOTATE a owl:NamedIndividual ; skos:notation "plannotate" ; a opencloning_linkml:AnnotationTool . opencloning_linkml:AssociatedFileType a owl:Class ; owl:equivalentClass [ a owl:Class ; owl:oneOf ( NCIT:C171177 ) ] . NCIT:C171177 a owl:NamedIndividual ; skos:notation "Sequencing file" ; rdfs:comment "A file containing sequencing data" ; a opencloning_linkml:AssociatedFileType . opencloning_linkml:Collection a owl:Class ; owl:equivalentClass [ a owl:Class ; owl:oneOf ( opencloning_linkml:Collection.ADDGENE_PLASMID opencloning_linkml:Collection.OLIGO_PAIR ) ] . opencloning_linkml:Collection.ADDGENE_PLASMID a owl:NamedIndividual ; skos:notation "AddgenePlasmid" ; rdfs:comment "A plasmid from Addgene" ; a opencloning_linkml:Collection . opencloning_linkml:Collection.OLIGO_PAIR a owl:NamedIndividual ; skos:notation "OligoPair" ; rdfs:comment "A pair of oligonucleotides for hybridization" ; a opencloning_linkml:Collection . opencloning_linkml:CollectionOptionType a owl:Class ; owl:equivalentClass [ a owl:Class ; owl:oneOf ( opencloning_linkml:CollectionOptionType.ADDGENE_PLASMID opencloning_linkml:CollectionOptionType.OLIGO_PAIR ) ] . opencloning_linkml:CollectionOptionType.ADDGENE_PLASMID a owl:NamedIndividual ; skos:notation "AddgenePlasmid" ; rdfs:comment "A plasmid from Addgene" ; a opencloning_linkml:CollectionOptionType . opencloning_linkml:CollectionOptionType.OLIGO_PAIR a owl:NamedIndividual ; skos:notation "OligoPair" ; rdfs:comment "A pair of oligonucleotides for hybridization" ; a opencloning_linkml:CollectionOptionType . opencloning_linkml:GatewayReactionType a owl:Class ; owl:equivalentClass [ a owl:Class ; owl:oneOf ( opencloning_linkml:GatewayReactionType.BP opencloning_linkml:GatewayReactionType.LR ) ] . opencloning_linkml:GatewayReactionType.BP a owl:NamedIndividual ; skos:notation "BP" ; rdfs:comment "BP reaction" ; a opencloning_linkml:GatewayReactionType . opencloning_linkml:GatewayReactionType.LR a owl:NamedIndividual ; skos:notation "LR" ; rdfs:comment "LR reaction" ; a opencloning_linkml:GatewayReactionType . opencloning_linkml:SequenceFileFormat a owl:Class ; owl:equivalentClass [ a owl:Class ; owl:oneOf ( opencloning_linkml:SequenceFileFormat.EMBL opencloning_linkml:SequenceFileFormat.FASTA opencloning_linkml:SequenceFileFormat.GENBANK opencloning_linkml:SequenceFileFormat.SNAPGENE ) ] . opencloning_linkml:SequenceFileFormat.EMBL a owl:NamedIndividual ; skos:notation "embl" ; a opencloning_linkml:SequenceFileFormat . opencloning_linkml:SequenceFileFormat.FASTA a owl:NamedIndividual ; skos:notation "fasta" ; a opencloning_linkml:SequenceFileFormat . opencloning_linkml:SequenceFileFormat.GENBANK a owl:NamedIndividual ; skos:notation "genbank" ; a opencloning_linkml:SequenceFileFormat . opencloning_linkml:SequenceFileFormat.SNAPGENE a owl:NamedIndividual ; skos:notation "snapgene" ; a opencloning_linkml:SequenceFileFormat . dcterms:license a owl:AnnotationProperty . vann:preferredNamespacePrefix a owl:AnnotationProperty . vann:preferredNamespaceUri a owl:AnnotationProperty . skos:exactMatch a owl:AnnotationProperty . skos:notation a owl:AnnotationProperty . sh:declare a owl:AnnotationProperty . sh:prefix a owl:AnnotationProperty . sh:namespace a owl:AnnotationProperty .