Add some domain to begin and end to match the paper (they make sense …

…as well)

faldo.ttl

@@ -9,21 +9,21 @@
 
 <http://biohackathon.org/resource/faldo>
       rdf:type owl:Ontology ;
-      spin:imports <http://topbraid.org/spin/owlrl-all> , <http://topbraid.org/spin/rdfsplus> , <http://topbraid.org/spin/spinowl> ;
+      spin:imports <http://topbraid.org/spin/spinowl> , <http://topbraid.org/spin/rdfsplus> , <http://topbraid.org/spin/owlrl-all> ;
       owl:versionInfo "Created with TopBraid Composer"^^xsd:string .
 
 :BagOfRegions
       rdf:type owl:Class ;
       rdfs:comment "Used to describe a location that consists of a number of Regions but where the order is not known. e.g. the oddly named order() keyword in a INSDC file."^^xsd:string ;
       rdfs:seeAlso <http://www.insdc.org/files/feature_table.html> ;
-      rdfs:subClassOf :CollectionOfRegions , rdf:Bag .
+      rdfs:subClassOf rdf:Bag , :CollectionOfRegions .
 
 :BothStrandsPosition
       rdf:type owl:Class ;
       rdfs:comment "The 'both strands position' indicates a region that is best described as being on 'both' strands of a double-stranded sequence, rather than one or the other."^^xsd:string ;
       rdfs:label "Both strands"^^xsd:string ;
       rdfs:subClassOf :StrandedPosition ;
-      owl:disjointWith :ReverseStrandPosition , :ForwardStrandPosition .
+      owl:disjointWith :ForwardStrandPosition , :ReverseStrandPosition .
 
 :CollectionOfRegions
       rdf:type owl:Class ;
@@ -48,14 +48,14 @@
                 owl:cardinality "1"^^xsd:nonNegativeInteger ;
                 owl:onProperty :position
               ] ;
-      owl:disjointWith :OneOfPosition , :InRangePosition , :InBetweenPosition .
+      owl:disjointWith :InBetweenPosition , :InRangePosition , :OneOfPosition .
 
 :ForwardStrandPosition
       rdf:type owl:Class ;
       rdfs:comment "The position is on the forward (positive, 5' to 3') strand. Shown as a '+' in GFF3 and GTF."^^xsd:string ;
       rdfs:label "Positive strand"^^xsd:string ;
       rdfs:subClassOf :StrandedPosition ;
-      owl:disjointWith :ReverseStrandPosition , :BothStrandsPosition .
+      owl:disjointWith :BothStrandsPosition , :ReverseStrandPosition .
 
 :FuzzyPosition
       rdf:type owl:Class ;
@@ -82,7 +82,7 @@
                                     "1"^^xsd:nonNegativeInteger
                           ])
               ] ;
-      owl:disjointWith :InRangePosition , :OneOfPosition , :ExactPosition .
+      owl:disjointWith :ExactPosition , :OneOfPosition , :InRangePosition .
 
 :InRangePosition
       rdf:type owl:Class ;
@@ -103,20 +103,20 @@
                             owl:onProperty :end
                           ])
               ] ;
-      owl:disjointWith :InBetweenPosition , :ExactPosition , :StrandedPosition , :OneOfPosition .
+      owl:disjointWith :OneOfPosition , :StrandedPosition , :ExactPosition , :InBetweenPosition .
 
 :ListOfRegions
       rdf:type owl:Class ;
-      rdfs:comment "As an ordered list of regions (but the list might not be complete)."^^xsd:string , "Should be used when the location of a region is defined by an ordered list of Regions. However, try to avoid using these types in favor of using more explicit semantics about why the order is important."^^xsd:string ;
+      rdfs:comment "Should be used when the location of a region is defined by an ordered list of Regions. However, try to avoid using these types in favor of using more explicit semantics about why the order is important."^^xsd:string , "As an ordered list of regions (but the list might not be complete)."^^xsd:string ;
       rdfs:seeAlso <http://www.insdc.org/files/feature_table.html> ;
-      rdfs:subClassOf :CollectionOfRegions , rdf:Seq .
+      rdfs:subClassOf rdf:Seq , :CollectionOfRegions .
 
 :OneOfPosition
       rdf:type owl:Class ;
       rdfs:comment "The position is known to be one of the more detailed positions listed by the location predicate."^^xsd:string ;
       rdfs:label "One of positions"^^xsd:string ;
       rdfs:subClassOf :FuzzyPosition ;
-      owl:disjointWith :ExactPosition , :InRangePosition , :InBetweenPosition .
+      owl:disjointWith :InBetweenPosition , :InRangePosition , :ExactPosition .
 
 :Position
       rdf:type owl:Class ;
@@ -154,7 +154,7 @@
       rdfs:comment "The position is on the reverse (complement, 3' to 5') strand of the sequence. Shown as '-' in GTF and GFF3."^^xsd:string ;
       rdfs:label "Negative strand"^^xsd:string ;
       rdfs:subClassOf :StrandedPosition ;
-      owl:disjointWith :BothStrandsPosition , :ForwardStrandPosition .
+      owl:disjointWith :ForwardStrandPosition , :BothStrandsPosition .
 
 :StrandedPosition
       rdf:type owl:Class ;
@@ -177,6 +177,10 @@
 :begin
       rdf:type owl:ObjectProperty ;
       rdfs:comment "The inclusive beginning of a position. Also known as start."^^xsd:string ;
+      rdfs:domain
+              [ rdf:type owl:Class ;
+                owl:unionOf (:Region :InRangePosition)
+              ] ;
       rdfs:range :Position ;
       owl:inverseOf :beginOf .
 
@@ -196,14 +200,14 @@
 :location
       rdf:type owl:ObjectProperty ;
       rdfs:comment "This is the link between the concept whose location you are annotating and its range or position. For example, when annotating the region that describes an exon, the exon would be the subject and the region would be the object of the triple or: 'active site' 'location' [is] 'position 3'."^^xsd:string ;
-      rdfs:range
+      rdfs:domain
               [ rdf:type owl:Class ;
                 owl:unionOf (:CollectionOfRegions :Region :Position)
               ] .
 
 :position
       rdf:type owl:DatatypeProperty ;
-      rdfs:comment "Denoted in 1-based closed coordinates, i.e. the position on the first amino acid or nucleotide of a sequence has the value 1."^^xsd:string , "The position value is the offset along the reference where this position is found. Thus the only the position value in combination with the reference determines where a position is."^^xsd:string ;
+      rdfs:comment "The position value is the offset along the reference where this position is found. Thus the only the position value in combination with the reference determines where a position is."^^xsd:string , "Denoted in 1-based closed coordinates, i.e. the position on the first amino acid or nucleotide of a sequence has the value 1."^^xsd:string ;
       rdfs:domain :ExactPosition ;
       rdfs:range
               [ rdf:type rdfs:Datatype ;