ReactantParticipation
type: Class
subclass of: Participation
equivalent class: Class
  intersection of: Participation
  intersection of: Restriction
    on property: role
    some values from: reactant
comment: Represents a participation of a feature that is a reactant in an interaction, with the role of SBO:reactant.
domainEntity: true

Operator DNA Component
type: Class
subclass of: DNA Component
equivalent class: Class
  intersection of: DNA Component
  intersection of: Restriction
    on property: role
    some values from: operator
comment: Represents an operator DNA component, with the role of SO:operator.
domainEntity: true

differentFrom
type: Class
subclass of: ConstraintRestriction
comment: The subject and object, after tracing through any layers of ComponentReference, MUST NOT both refer to SubComponent objects with the same instanceOf value or both refer to ExternallyDefined objects with the same definition. Example: two fluorescent reporters must be different.

hasInterface
type: ObjectProperty
type: FunctionalProperty
sub property of: directlyComprises
domain: Component
range: Interface
comment: A Component MAY have zero or one hasInterface property of type IRI that MUST reference an Interface object.

Component Type
type: Class
subclass of: physical entity representation
subclass of: SBOLValue
equivalent class: Class
  union of: functional entity
  union of: simple chemical
  union of: ribonucleic acid
  union of: deoxyribonucleic acid
  union of: polypeptide chain
  union of: non-covalent complex
equivalent class: Class
  union of: Component Type
  union of: linear
  union of: circular
  union of: single
  union of: double
comment: Controlled vocabulary for the types of physical entities that can be represented in SBOL. The value of a Component's type property must be an instance of a class that is a subclass of ComponentType.
Constant list: true

Functional Entity Component
type: Class
subclass of: Component
equivalent class: Class
  intersection of: Component
  intersection of: Restriction
    on property: type
    some values from: functional entity
comment: Represents a functional entity component, with the type of SBO:functional_entity.
domainEntity: true

end
type: DatatypeProperty
type: FunctionalProperty
domain: Range
range: Datatype
  on datatype: integer
  with restrictions:
    min inclusive: 1
comment: The end property specifies the inclusive ending position of the Range. This property is REQUIRED and MUST contain an Integer value greater than zero. In addition, this Integer value MUST be greater than or equal to that of the start property.

OrientationRestriction
type: Class
subclass of: ConstraintRestriction
equivalent class: Class
  union of: sameOrientationAs
  union of: oppositeOrientationAs
comment: Orientation restrictions are a subset of the ConstraintRestriction class that are used to express orientation relationships between pairs of Features within a template Component. The value of an OrientationRestriction must be one of the following: sameOrientationAs or oppositeOrientationAs.
Constant list: true

Promoter DNA Component
type: Class
subclass of: DNA Component
equivalent class: Class
  intersection of: DNA Component
  intersection of: Restriction
    on property: role
    some values from: promoter
comment: Represents a promoter DNA component, with the role of SO:promoter.
domainEntity: true

GenericTopLevel
type: Class
subclass of: TopLevel
subclass of: Restriction
  on property: type
  some values from: Thing
comment: The GenericTopLevel class is a way to create a placeholder for a top-level entity that is not defined in the SBOL data model.
domainEntity: true

DNA Role
type: Class
subclass of: Component Role
equivalent class: Class
  union of: sequence_feature
  union of: promoter
  union of: ribosome_entry_site
  union of: CDS
  union of: terminator
  union of: gene
  union of: operator
  union of: engineered_region
comment: Controlled vocabulary for the roles that a DNA Component can play in a design. The value of a Component's role property must be an instance of a class that is a subclass of DNARole.
Constant list: true

start
type: DatatypeProperty
type: FunctionalProperty
domain: Range
range: Datatype
  on datatype: integer
  with restrictions:
    min inclusive: 1
comment: The start property specifies the inclusive starting position of the Range. This property is REQUIRED and MUST contain an Integer value greater than zero.

InChI Sequence
type: Class
subclass of: Sequence With Elements
equivalent class: Class
  intersection of: Sequence With Elements
  intersection of: Restriction
    on property: encoding
    some values from: InChI
comment: Represents a chemical structure using the IUPAC International Chemical Identifier (InChI) format, with the encoding of EDAM format 1197. The elements property MUST contain a valid InChI string.
domainEntity: true

functional entity
type: Class
subclass of: physical entity representation
comment: A real thing, defined by its properties or the actions it performs, rather than it physico-chemical structure.

ModifierParticipation
type: Class
subclass of: Participation
equivalent class: Class
  intersection of: Participation
  intersection of: Restriction
    on property: role
    some values from: modifier
comment: Represents a participation of a feature that is a modifier in an interaction, with the role of SBO:modifier.
domainEntity: true

reactant
type: Class
subclass of: participant role
comment: Substance consumed by a chemical reaction. Reactants react with each other to form the products of a chemical reaction. In a chemical equation the Reactants are the elements or compounds on the left hand side of the reaction equation. A reactant can be consumed and produced by the same reaction, its global quantity remaining unchanged.

CDS DNA Component
type: Class
subclass of: DNA Component
equivalent class: Class
  intersection of: DNA Component
  intersection of: Restriction
    on property: role
    some values from: CDS
comment: Represents a coding sequence DNA component, with the role of SO:CDS.
domainEntity: true

effector
type: Class
subclass of: material entity role
comment: A small molecule which increases (activator) or decreases (inhibitor) the activity of an (allosteric) enzyme by binding to the enzyme at the regulatory site (which is different from the substrate-binding catalytic site).

hasLocation
type: ObjectProperty
sub property of: directlyComprises
domain: Class
  union of: SubComponent
  union of: LocalSubComponent
  union of: SequenceFeature
range: Location
comment: A SubComponent MAY have any number of hasLocation properties, each of type IRI, that MUST refer to Location objects that indicates the location of the Sequence from the instanceOf Component in a Sequence of the parent Component. A LocalSubComponent MAY have any number of hasLocation properties, each of type IRI, that MUST refer to Location objects. In SequenceFeature, the hasLocation is REQUIRED and contains one or more IRIs, which MUST refer to Location objects.

replaces
type: Class
subclass of: ConstraintRestriction
comment: In the context of the parent object of the Constraint, information about the subject should be used in place of all instances of the object. Example: the J23101 promoter replaces a generic promoter.

hasUnit
type: ObjectProperty
type: FunctionalProperty
domain: Class
  union of: Measure
  union of: SingularUnit
  union of: PrefixedUnit
range: Unit
comment: This property can be used in a Measure, SingularUnit or PrefixedUnit. For Measure and PrefixedUnit, the om:hasUnit property is REQUIRED and MUST contain a IRI that refers to a om:Unit. For SingularUnit, the om:hasUnit is OPTIONAL and MAY contain a IRI.

output
type: ObjectProperty
domain: Interface
range: Feature
comment: An Interface MAY have any number of output properties, each of type IRI, that MUST reference a Feature object in the same Component.

SBOLPrefix
type: Class
subclass of: TopLevel
subclass of: Prefix
replacementOf: Prefix
comment: A wrapper class to enable the use of OM Prefixes in SBOL. This class allows adding custom SBOL relationships.
domainEntity: true

Gene DNA Component
type: Class
subclass of: DNA Component
equivalent class: Class
  intersection of: DNA Component
  intersection of: Restriction
    on property: role
    some values from: gene
comment: Represents a gene DNA component, with the role of SO:gene.
domainEntity: true

inhibitor
type: Class
subclass of: modifier
comment: Substance that decreases the probability of a chemical reaction without itself being consumed or transformed by the reaction.

RNA Component
type: Class
subclass of: Component
equivalent class: Class
  intersection of: Component
  intersection of: Restriction
    on property: type
    some values from: ribonucleic acid
  intersection of: Restriction
    on property: role
    some values from: RNA role
  intersection of: Restriction
    on property: hasSequence
    all values from: RNA Sequence
comment: Represents an RNA component, with the type of SBO:RNA, the role of RNARole. It restricts instances to have the sequences with the correct RNA encoding.
domainEntity: true

inhibited
type: Class
subclass of: participant role
comment: Conceptual or material entity that is the object of an inhibition process, and is acted upon by an inhibitor.

Collection
type: Class
subclass of: TopLevel
comment: The Collection class is a class that groups together a set of TopLevel objects that have something in common.
domainEntity: true

ModelLanguage
type: Class
subclass of: SBOLValue
equivalent class: Class
  union of: SBML
  union of: CellML
  union of: BioPAX
comment: Provides a vocabulary to choose the modeling language of a Model. Model languages are typically identified using IRIs, such as terms from the EDAM ontology.
Constant list: true

systems biology representation
type: Class
subclass of: Thing
comment: Representation of an entity used in a systems biology knowledge reconstruction, such as a model, pathway, network.

Protein Component
type: Class
subclass of: Component
equivalent class: Class
  intersection of: Component
  intersection of: Restriction
    on property: type
    some values from: polypeptide chain
  intersection of: Restriction
    on property: role
    some values from: Protein Role
  intersection of: Restriction
    on property: hasSequence
    all values from: Protein Sequence
comment: Represents a protein component, with the type of SBO:protein, the role of ProteinRole. It restricts instances to have the sequences with the correct protein encoding.
domainEntity: true

qualifiedAssociation
type: ObjectProperty
domain: Activity
range: Association
comment: An prov:Activity MAY have one or more prov:qualifiedAssociation properties, each of type IRI that refers to an prov:Association object.

UnitMultiplication
type: Class
subclass of: Unit
subclass of: Restriction
  on property: hasTerm1
  some values from: Unit
subclass of: Restriction
  on property: hasTerm2
  some values from: Unit
comment: The purpose of the om:UnitMultiplication class is to describe a unit of measure that is the multiplication of two other units of measure.

GeneticProductionInteraction
type: Class
subclass of: Interaction
equivalent class: Class
  intersection of: Interaction
  intersection of: Restriction
    on property: type
    some values from: genetic production
  intersection of: Restriction
    on property: hasParticipation
    some values from: TemplateParticipation
  intersection of: Restriction
    on property: hasParticipation
    some values from: ProductParticipation
  intersection of: Restriction
    on property: hasParticipation
    on class: PromoterParticipation
    min qualified cardinality: 0
comment: Represents a genetic production interaction, with the type of SBO:genetic_production, that involves at least one template participation and at least one product participation.
domainEntity: true

LocalSubComponent
type: Class
subclass of: Feature
subclass of: Restriction
  on property: type
  some values from: Thing
comment: The LocalSubComponent class is a subclass of Feature. This class serves as a way to create a placeholder in more complex Components, such as a variable to be filled in later or a composite that exists only within the context of the parent Component.
domainEntity: true

encoding
type: ObjectProperty
type: FunctionalProperty
domain: Sequence
comment: The encoding property has a data type of IRI, and is OPTIONAL unless elements is set, in which case it is REQUIRED.

Effector Simple Chemical Component
type: Class
subclass of: Simple Chemical Component
equivalent class: Class
  intersection of: Simple Chemical Component
  intersection of: Restriction
    on property: role
    some values from: effector
comment: Represents an effector simple chemical component, with the role of CHEBI:effector.
domainEntity: true

refersTo
type: ObjectProperty
type: FunctionalProperty
domain: ComponentReference
range: Feature
comment: The refersTo property is a REQUIRED IRI that refers to a Feature.

hash
type: DatatypeProperty
type: FunctionalProperty
domain: Attachment
range: string
comment: The hash property is OPTIONAL and MAY contain a hash value for the file contents represented as a hexadecimal digest.

type
type: ObjectProperty
domain: Class
  union of: Component
  union of: LocalSubComponent
  union of: ExternallyDefined
  union of: Interaction
  union of: SBOL Activity
  union of: SBOL Measure
comment: A Component MUST have one or more type properties, each of type IRI specifying the category of biochemical or physical entity (for example DNA, protein, or simple chemical) that a Component object abstracts for the purpose of engineering design

physical entity representation
type: Class
subclass of: systems biology representation
comment: Synonym: new synonym

Identified
type: Class
subclass of: Thing
subclass of: Restriction
  on property: topObjectProperty
  on class: Metadata
  min qualified cardinality: 0
comment: All SBOL-defined classes are directly or indirectly derived from the Identified abstract class.

ConstraintRestriction
type: Class
subclass of: SBOL Term
comment: Controlled vocabulary for the types of restrictions that can be expressed in a Constraint. The value of a Constraint's restriction property must be an instance of a class that is a subclass of ConstraintRestriction. Subclasses of ConstraintRestriction include IdentityRestriction, TopologyRestriction, SequentialRestriction, and OrientationRestriction.
Constant list: true

stimulation
type: Class
subclass of: control
comment: Positive modulation of the execution of a process.

biochemical or transport reaction
type: Class
subclass of: occurring entity representation
comment: An event involving physical entities that results in modification of structure, location, or free energy.

SBOLUnitDivision
type: Class
subclass of: SBOLUnit
subclass of: UnitDivision
replacementOf: UnitDivision
comment: A wrapper class to enable the use of OM UnitDivisions in SBOL. This class allows adding custom SBOL relationships.
domainEntity: true

Activity
type: Class
subclass of: Thing
comment: An Activity is used to represent the execution of a process or set of processes. An Activity is linked through prov:qualifiedAssociation to one or more Associations, and is linked through prov:used to one or more Entities.

hasTerm2
type: ObjectProperty
type: FunctionalProperty
domain: UnitMultiplication
range: Unit
comment: The om:hasTerm2 property is REQUIRED and MUST contain a IRI that refers to another om:Unit. This om:Unit is the second multiplication term. It is okay if the om:Unit referred to by om:hasTerm1 is the same as that referred to by om:hasTerm2.

Engineered Region DNA Component
type: Class
subclass of: DNA Component
equivalent class: Class
  intersection of: DNA Component
  intersection of: Restriction
    on property: role
    some values from: engineered_region
comment: Represents an engineered region DNA component, with the role of SO:engineered_region.
domainEntity: true

size
type: DatatypeProperty
type: FunctionalProperty
domain: Attachment
range: Datatype
  on datatype: integer
  with restrictions:
    min inclusive: 0
comment: The size property is OPTIONAL and MAY contain a long indicating the file size in bytes.

domainEntity
type: AnnotationProperty
comment: If true, indicates that the term corresponds to a domain entity. Software automation tools should create a specific entity.

order
type: DatatypeProperty
type: FunctionalProperty
domain: Location
range: Datatype
  on datatype: integer
  with restrictions:
    min inclusive: 1
comment: The order property is OPTIONAL and has a data type of Integer. If there are multiple Location objects associated with a Feature, the order property is used to specify the order (in increasing value) in which the specified Locations are to be joined to form the sequence of the Feature.

product
type: Class
subclass of: participant role
comment: Substance that is produced in a reaction. In a chemical equation the Products are the elements or compounds on the right hand side of the reaction equation. A product can be produced and consumed by the same reaction, its global quantity remaining unchanged.

hadPlan
type: ObjectProperty
type: FunctionalProperty
domain: Association
range: Plan
comment: The prov:hadPlan property is OPTIONAL and contains a IRI that refers to a prov:Plan.

CombinatorialDerivation
type: Class
subclass of: TopLevel
subclass of: Restriction
  on property: template
  some values from: Component
comment: The purpose of the CombinatorialDerivation class is to specify combinatorial biological designs without having to specify every possible design variant.
domainEntity: true

occurring entity representation
type: Class
subclass of: systems biology representation
comment: Representation of an entity that manifests, unfolds or develops through time, such as a discrete event, or a mutual or reciprocal action or influence that happens between participating physical entities, and/or other occurring entities.

Protein Role
type: Class
subclass of: Component Role
equivalent class: Class
  union of: molecular_function
  union of: DNA-binding transcription factor activity
comment: Controlled vocabulary for the roles that a Protein Component can play in a design. The value of a Component's role property must be an instance of a class that is a subclass of ProteinRole.
Constant list: true

EntireSequence
type: Class
subclass of: Location
comment: The EntireSequence class does not have any additional properties. Use of this class indicates that the linked Sequence describes the entirety of the Component or Feature parent of this Location object.
domainEntity: true

SIPrefix
type: Class
subclass of: Prefix
comment: The purpose of the om:SIPrefix class is to describe standard SI prefixes such as "milli", "centi", "kilo", etc.

entity
type: ObjectProperty
type: FunctionalProperty
domain: Usage
comment: The prov:entity property is REQUIRED and MUST contain a IRI which MAY refer to an Identified object.

SBOL Agent
type: Class
subclass of: TopLevel
subclass of: Agent
replacementOf: Agent
comment: A wrapper for the PROV-O Agent class. The purpose of this class is to allow for the inclusion of SBOL-specific properties on PROV Agents, such as the association of an Agent with a particular Component or Interaction.
domainEntity: true

Constraint
type: Class
subclass of: Identified
subclass of: Restriction
  on property: restriction
  some values from: Thing
subclass of: Restriction
  on property: subject
  some values from: Feature
subclass of: Restriction
  on property: object
  some values from: Feature
comment: The Constraint class can be used to assert restrictions on the relationships of pairs of Feature objects contained by the same parent Component. Uses of this class include expressing containment (e.g., a plasmid transformed into a chassis strain), identity mappings (e.g., replacing a placeholder value with a complete definition), and expressing relative, sequence-based positions (e.g., the ordering of features within a template).
domainEntity: true

format
type: ObjectProperty
type: FunctionalProperty
domain: Attachment
comment: The format property is OPTIONAL and MAY contain a IRI that specifies the format of the attached file. It is RECOMMENDED that this IRI refer to a term from the EMBRACE Data and Methods (EDAM) ontology

SBOLSIPrefix
type: Class
subclass of: SBOLPrefix
subclass of: SIPrefix
replacementOf: SIPrefix
comment: A wrapper class to enable the use of OM SIPrefixes in SBOL. This class allows adding custom SBOL relationships.
domainEntity: true

NonCovalentBindingInteraction
type: Class
subclass of: Interaction
equivalent class: Class
  intersection of: Interaction
  intersection of: Restriction
    on property: type
    some values from: non-covalent binding
  intersection of: Restriction
    on property: hasParticipation
    some values from: ReactantParticipation
  intersection of: Restriction
    on property: hasParticipation
    some values from: ProductParticipation
comment: Represents a non-covalent binding interaction, with the type of SBO:non_covalent_binding, that involves at least one reactant participation and at least one product participation.
domainEntity: true

member
type: ObjectProperty
domain: Collection
range: TopLevel
comment: A Collection object can have zero or more member properties, each of type IRI specifying a TopLevel object.

nondirectional
type: ObjectProperty
domain: Interface
range: Feature
comment: An Interface MAY have any number of nondirectional properties, each of type IRI, that MUST reference a Feature object in the same Component.

hasModel
type: ObjectProperty
domain: Component
range: Model
comment: A Component MAY have any number of hasModel properties, each of type IRI, that MUST reference a Model object.

wasInformedBy
type: ObjectProperty
domain: Activity
range: Activity
comment: An prov:Activity MAY have one or more prov:wasInformedBy properties, each of type IRI that refers to another prov:Activity object.

strictlyPrecedes
type: Class
subclass of: ConstraintRestriction
comment: The end of the location for subject is less than the start of the location for object.

InhibitedParticipation
type: Class
subclass of: Participation
equivalent class: Class
  intersection of: Participation
  intersection of: Restriction
    on property: role
    some values from: inhibited
comment: Represents a participation of a feature that is inhibited in an interaction, with the role of SBO:inhibited.
domainEntity: true

StimulatorParticipation
type: Class
subclass of: Participation
equivalent class: Class
  intersection of: Participation
  intersection of: Restriction
    on property: role
    some values from: stimulator
comment: Represents a participation of a feature that stimulates an interaction, with the role of SBO:stimulator.
domainEntity: true

wasGeneratedBy
type: ObjectProperty
domain: Identified
range: SBOL Activity
comment: An Identified object MAY have zero or more prov:wasGeneratedBy properties, each of type IRI.

RNA role
type: Class
subclass of: Component Role
equivalent class: Class
  union of: sequence_feature
  union of: mRNA
comment: Controlled vocabulary for the roles that an RNA Component can play in a design. The value of a Component's role property must be an instance of a class that is a subclass of RNARole.
Constant list: true

overlaps
type: Class
subclass of: ConstraintRestriction
comment: The subject and object overlap in space, but portions of each are outside of the other.

control
type: Class
subclass of: occurring entity representation
comment: Synonym: regulation

SBML
type: Class
subclass of: Format
comment: Systems Biology Markup Language (SBML), the standard XML format for models of biological processes such as for example metabolism, cell signaling, and gene regulation.

InhibitionInteraction
type: Class
subclass of: Interaction
equivalent class: Class
  intersection of: Interaction
  intersection of: Restriction
    on property: type
    some values from: inhibition
  intersection of: Restriction
    on property: hasParticipation
    some values from: InhibitorParticipant
  intersection of: Restriction
    on property: hasParticipation
    some values from: InhibitedParticipation
comment: Represents an inhibition interaction, with the type of SBO:inhibition, that involves at least one inhibitor participation and at least one inhibited participation.
domainEntity: true

built
type: ObjectProperty
type: FunctionalProperty
domain: Implementation
range: Component
comment: The built property is OPTIONAL and MAY contain a IRI that MUST refer to a Component. This Component is intended to describe the actual physical structure and/or functional behavior of the Implementation.

Model
type: Class
subclass of: TopLevel
subclass of: Restriction
  on property: source
  some values from: Thing
subclass of: Restriction
  on property: language
  some values from: Thing
subclass of: Restriction
  on property: framework
  some values from: Thing
comment: The purpose of the Model class is to serve as a placeholder for an external computational model and provide additional meta-data to enable better reasoning about the contents of this model.
domainEntity: true

IdentityRestriction
type: Class
subclass of: ConstraintRestriction
equivalent class: Class
  union of: verifyIdentical
  union of: differentFrom
  union of: replaces
comment: Identity restrictions are a subset of the ConstraintRestriction class that are used to express identity relationships between pairs of Features within a template Component. The value of an IdentityRestriction must be one of the following: verifyIdentical, differentFrom, or replaces.
Constant list: true

mergeRoles
type: Class
subclass of: RoleIntegration
comment: Use the union of the two sets: both the set of zero or more role properties given for this SubComponent as well as the set of zero or more role properties given for the included Component.

CDS
type: Class
subclass of: sequence_feature
comment: A contiguous sequence which begins with, and includes, a start codon and ends with, and includes, a stop codon.

SBOL Plan
type: Class
subclass of: TopLevel
subclass of: Plan
replacementOf: Plan
comment: A wrapper for the PROV-O Plan class. The purpose of this class is to allow for the inclusion of SBOL-specific properties on PROV Plans, such as the association of a Plan with a particular Component or Interaction.
domainEntity: true

DegradationInteraction
type: Class
subclass of: Interaction
equivalent class: Class
  intersection of: Interaction
  intersection of: Restriction
    on property: type
    some values from: degradation
  intersection of: Restriction
    on property: hasParticipation
    some values from: ReactantParticipation
comment: Represents a degradation interaction, with the type of SBO:degradation, that involves at least one reactant participation.
domainEntity: true

DNA or RNA Component Type
type: Class
subclass of: Component Type
comment: Type for DNA or RNA components. The value of a Component's type property must be an instance of a class that is a subclass of DNARNAComponentType if the Component has a role that is a subclass of DNARole or RNARole.
Constant list: true

language
type: ObjectProperty
type: FunctionalProperty
domain: Model
comment: The language property is REQUIRED and MUST contain a IRI that specifies the language in which the model is implemented. It is RECOMMENDED that this IRI refer to a term from the EMBRACE Data and Methods (EDAM) ontology.

longComment
type: DatatypeProperty
type: FunctionalProperty
domain: Class
  union of: Unit
  union of: Prefix
range: string
comment: This property can be used in a Unit or Prefix. The om:longcomment property is OPTIONAL and MAY contain a String. This String is a long description of the unit of measure and SHOULD be longer than any String contained by the om:comment property.

Measure
type: Class
subclass of: Thing
subclass of: Restriction
  on property: hasNumericalValue
  some values from: decimal
subclass of: Restriction
  on property: hasUnit
  some values from: Unit
comment: The purpose of the om:Measure class is to link a numerical value to a om:Unit.

Unit
type: Class
subclass of: Thing
subclass of: Restriction
  on property: label
  some values from: string
subclass of: Restriction
  on property: symbol
  some values from: string
comment: om:Unit is an abstract class that is extended by other classes to describe units of measure using a shared set of properties.

nucleotide
type: Class
subclass of: Format
comment: Alphabet for a nucleotide sequence with possible ambiguity, unknown positions and non-sequence characters.

participant
type: ObjectProperty
type: FunctionalProperty
domain: Participation
range: Feature
comment: The participant property indicates a Feature object that plays the designated role in its parent Interaction object. Precisely one value MUST be specified for precisely one of participant or higherOrderParticipant.

Interface
type: Class
subclass of: Identified
comment: The Interface class is a way of explicitly specifying the interface of a Component.
domainEntity: true

Non-Covalent Complex Component
type: Class
subclass of: Component
equivalent class: Class
  intersection of: Component
  intersection of: Restriction
    on property: type
    some values from: non-covalent complex
comment: Represents a non-covalent complex Component, with the type SBO:non-covalent complex.
domainEntity: true

directlyComprises
type: ObjectProperty
sub property of: comprises
comment: Subclass of comprises that is used to express direct parent-child compositional relationships.

strategy
type: ObjectProperty
type: FunctionalProperty
domain: CombinatorialDerivation
range: Class
  union of: enumerate
  union of: sample
comment: The strategy property is OPTIONAL and has a data type of IRI.

sourceLocation
type: ObjectProperty
sub property of: directlyComprises
domain: SubComponent
range: Location
comment: The sourceLocation property allows for only a portion of a Component's Sequence to be included, rather than its entirety.

DNA-binding transcription factor activity
type: Class
subclass of: molecular_function
comment: A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons.

strictlyContains
type: Class
subclass of: ConstraintRestriction
comment: The subject entirely contains the object: they do not share a boundary.

hasFeature
type: ObjectProperty
sub property of: directlyComprises
domain: Component
range: Feature
comment: A Component MAY have any number of hasFeature properties, each of type IRI that MUST reference a Feature object

hasDenominator
type: ObjectProperty
type: FunctionalProperty
domain: UnitDivision
range: Unit
comment: The om:hasDenominator property is REQUIRED and MUST contain a IRI that refers to another om:Unit.

ComponentReference
type: Class
subclass of: Feature
subclass of: Restriction
  on property: refersTo
  some values from: Feature
subclass of: Restriction
  on property: inChildOf
  some values from: SubComponent
comment: The ComponentReference class is a subclass of Feature that can be used to reference Features within SubComponents.
domainEntity: true

instanceOf
type: ObjectProperty
type: FunctionalProperty
domain: SubComponent
range: Component
comment: The instanceOf property is a REQUIRED IRI that refers to the Component providing the definition for this SubComponent.

template
type: ObjectProperty
type: FunctionalProperty
domain: CombinatorialDerivation
range: Component
comment: The template property is REQUIRED and MUST contain a IRI that refers to a Component.

displayId
type: DatatypeProperty
type: FunctionalProperty
domain: Identified
range: string
comment: The displayId property is an OPTIONAL identifier with a data type of String. This property is intended to be an intermediate between a IRI and the name property that is machine-readable, but more human-readable than the full IRI of an object

isDisjointFrom
type: Class
subclass of: ConstraintRestriction
comment: The subject and object do not overlap in space.

Cut
type: Class
subclass of: Location
subclass of: Restriction
  on property: at
  some values from: Datatype
    on datatype: integer
    with restrictions:
      min inclusive: 0
comment: The Cut class has been introduced to enable the specification of a region between two discrete positions. This specification is accomplished using the at property, which specifies a discrete position that corresponds to the index of a character in the elements String of a Sequence (except in the case when at is equal to zero.)
domainEntity: true

degradation
type: Class
subclass of: biochemical reaction
comment: Complete disappearance of a physical entity.

SBOLUnitExponentiation
type: Class
subclass of: SBOLUnit
subclass of: UnitExponentiation
replacementOf: UnitExponentiation
comment: A wrapper class to enable the use of OM UnitExponentiations in SBOL. This class allows adding custom SBOL relationships.
domainEntity: true

Range
type: Class
subclass of: Location
subclass of: Restriction
  on property: start
  some values from: Datatype
    on datatype: integer
    with restrictions:
      min inclusive: 1
subclass of: Restriction
  on property: end
  some values from: Datatype
    on datatype: integer
    with restrictions:
      min inclusive: 1
comment: A Range object specifies a region via discrete, inclusive start and end positions that correspond to indices for characters in the elements String of a Sequence.
domainEntity: true

promoter
type: Class
subclass of: participant role
comment: A region of DNA to which various transcription factors and RNA polymerase must bind in order to initiate transcription for a gene.

Orientation
type: Class
subclass of: SBOL Term
equivalent class: Class
  union of: inline
  union of: reverseComplement
comment: Controlled vocabulary for the orientation of a Feature or Location. The value of a Feature or Location's orientation property must be an instance of a class that is a subclass of Orientation.
Constant list: true

hasParticipation
type: ObjectProperty
sub property of: directlyComprises
domain: Interaction
range: Participation
comment: An Interaction MAY have any number of hasParticipation properties, each of type IRI, that MUST reference a Participation object, each of which identifies the role that its referenced Feature plays in the Interaction.

RBS DNA Component
type: Class
subclass of: DNA Component
equivalent class: Class
  intersection of: DNA Component
  intersection of: Restriction
    on property: role
    some values from: ribosome_entry_site
comment: Represents a ribosome binding site DNA component, with the role of SO:RBS.
domainEntity: true

subject
type: ObjectProperty
type: FunctionalProperty
domain: Constraint
range: Feature
comment: The subject property is REQUIRED and MUST contain a IRI that refers to a Feature contained by the same parent Component that contains the Constraint.

Sequence
type: Class
subclass of: TopLevel
comment: The purpose of the Sequence class is to represent the primary structure of a Component object and the manner in which it is encoded.
domainEntity: true

SubComponent
type: Class
subclass of: Feature
subclass of: Restriction
  on property: instanceOf
  some values from: Component
comment: The SubComponent class is a subclass of the Feature class that can be used to specify structural hierarchy.
domainEntity: true

higherOrderParticipant
type: ObjectProperty
type: FunctionalProperty
domain: Participation
range: Interaction
comment: The higherOrderParticipant property indicates an Interaction object that plays the designated role in its parent Interaction object. Precisely one value MUST be specified for precisely one of participant or higherOrderParticipant.

cardinality
type: ObjectProperty
type: FunctionalProperty
domain: VariableFeature
range: Class
  union of: zeroOrOne
  union of: one
  union of: zeroOrMore
  union of: OneOrMore
comment: The cardinality property is REQUIRED and has type of IRI. This property specifies how many Feature objects SHOULD be derived from the template Feature during the derivation of a new Component.

framework
type: ObjectProperty
type: FunctionalProperty
domain: Model
comment: The framework property is REQUIRED and MUST contain a IRI that specifies the framework in which the model is implemented. It is RECOMMENDED this IRI refer to a term from the modeling framework branch of the SBO when possible.

ribonucleic acid
type: Class
subclass of: physical entity representation
comment: Synonym: RNA

Interaction
type: Class
subclass of: Identified
subclass of: Restriction
  on property: type
  some values from: Thing
comment: The Interaction class provides more detailed description of how the Feature objects of a Component are intended to work together. For example, this class can be used to represent different forms of genetic regulation (e.g., transcriptional activation or repression), processes from the central dogma of biology (e.g. transcription and translation), and other basic molecular interactions (e.g., non-covalent binding or enzymatic phosphorylation).
domainEntity: true

variant
type: ObjectProperty
domain: VariableFeature
range: Component
comment: A VariableFeature object can have zero or more variant properties, each of type IRI, specifying a Component object. This property specifies individual Component objects to serve as options when deriving a new Feature for the variable Feature from the template.

Format
type: Class
subclass of: Thing
comment: A defined way or layout of representing and structuring data in a computer file, blob, string, message, or elsewhere.

RoleIntegration
type: Class
subclass of: SBOL Term
equivalent class: Class
  union of: overrideRoles
  union of: mergeRoles
comment: A roleIntegration specifies the relationship between a SubComponent instance's own set of role properties and the set of role properties on the included Component.
Constant list: true

mRNA
type: Class
subclass of: sequence_feature
comment: An mRNA does not contain introns as it is a processed_transcript. The equivalent kind of primary_transcript is protein_coding_primary_transcript (SO:0000120) which may contain introns. This term is mapped to MGED. Do not obsolete without consulting MGED ontology. Messenger RNA is the intermediate molecule between DNA and protein. It includes UTR and coding sequences. It does not contain introns.

linear
type: Class
subclass of: sequence_attribute
comment: Attributes added to describe the different kinds of replicon. SO workshop, September 2006. A quality of a nucleotide polymer that has a 3'-terminal residue and a 5'-terminal residue.

continuous framework
type: Class
subclass of: modelling framework
comment: Modelling approach where the quantities of participants are considered continuous, and represented by real values. The associated simulation methods make use of differential equations.

at
type: DatatypeProperty
type: FunctionalProperty
domain: Cut
range: Datatype
  on datatype: integer
  with restrictions:
    min inclusive: 0
comment: The at property is REQUIRED and MUST contain an Integer value greater than or equal to zero. The region specified by the Cut is between the position specified by this property and the position that immediately follows it. When the at property is equal to zero, the specified region is immediately before the first discrete position or character in the elements String of a Sequence.

participant role
type: Class
subclass of: systems biology representation
comment: The function of a physical or conceptual entity, that is its role, in the execution of an event or process.

Experiment
type: Class
subclass of: Collection
comment: The purpose of the Experiment class is to aggregate ExperimentalData objects for subsequent analysis, usually in accordance with an experimental design.
domainEntity: true

Location
type: Class
subclass of: Identified
subclass of: Restriction
  on property: hasSequence
  some values from: Sequence
subclass of: Restriction
  on property: hasSequence
  on class: Sequence
  max qualified cardinality: 1
comment: The Location class is used to represent the location of Features within Sequences. This class is extended by the Range, Cut, and EntireSequence classes. Location is an abstract class; only its child classes are actually instantiated.
domainEntity: true

Usage
type: Class
subclass of: Thing
comment: A Usage is used to describe the involvement of an Entity in an Activity, specifying how the Entity was used during the execution of the Activity.

StimulationInteraction
type: Class
subclass of: Interaction
equivalent class: Class
  intersection of: Interaction
  intersection of: Restriction
    on property: type
    some values from: stimulation
  intersection of: Restriction
    on property: hasParticipation
    some values from: StimulatedParticipation
  intersection of: Restriction
    on property: hasParticipation
    some values from: StimulatorParticipation
comment: Represents a stimulation interaction, with the type of SBO:stimulation, that involves at least one stimulator participation and at least one stimulated participation.
domainEntity: true

engineered_region
type: Class
subclass of: sequence_feature
comment: A region that is engineered.

sequence_feature
type: Class
subclass of: Thing
comment: Any extent of continuous biological sequence.

wasDerivedFrom
type: ObjectProperty
domain: Identified
range: Thing
comment: An Identified object MAY have zero or more prov:wasDerivedFrom properties, each of type IRI. This property is defined by the PROV-O ontology and is located in the https://www.w3.org/ns/prov# namespace

UnitExponentiation
type: Class
subclass of: Unit
subclass of: Restriction
  on property: hasBase
  some values from: Unit
subclass of: Restriction
  on property: hasExponent
  some values from: integer
comment: The purpose of the om:UnitExponentiation class is to describe a unit of measure that is raised to an integer power.

ExperimentalData
type: Class
subclass of: TopLevel
comment: The purpose of the ExperimentalData class is to aggregate links to experimental data files. An ExperimentalData is typically associated with a single sample, lab instrument, or experimental condition and can be used to describe the output of the test phase of a design-build-test-learn workflow.
domainEntity: true

polypeptide chain
type: Class
subclass of: physical entity representation
comment: Naturally occurring macromolecule formed by the repetition of amino-acid residues linked by peptidic bonds. A polypeptide chain is synthesized by the ribosome.

inline
type: Class
subclass of: Orientation
comment: Inline is an attribute of the feature, where the feature is in the 5' to 3' direction.

BinaryPrefix
type: Class
subclass of: Prefix
comment: The purpose of the om:BinaryPrefix class is to describe standard binary prefixes such as "kibi", "mebi", "gibi", etc.

definition
type: ObjectProperty
type: FunctionalProperty
domain: ExternallyDefined
comment: The definition property is REQUIRED and is of type IRI that links to a canonical definition external to SBOL.

equals
type: Class
subclass of: ConstraintRestriction
comment: The subject and object occupy the same location in space.

SBOLBinaryPrefix
type: Class
subclass of: SBOLPrefix
subclass of: BinaryPrefix
replacementOf: BinaryPrefix
comment: A wrapper class to enable the use of OM BinaryPrefixes in SBOL. This class allows adding custom SBOL relationships.
domainEntity: true

operator
type: Class
subclass of: sequence_feature
comment: Moved to transcriptional_cis_regulatory_region (SO:0001055) from gene_group_regulatory_region (SO:0000752) on 11 Feb 2021 when SO:0000752 was merged into SO:0001055. See GitHub Issue #529. A regulatory element of an operon to which activators or repressors bind thereby effecting translation of genes in that operon.

Metadata
type: Class
subclass of: Identified
subclass of: Restriction
  on property: type
  some values from: Thing
comment: Custom data in the form of independent objects can participate in the SBOL data model if they are assigned one of the SBOL types Identified or TopLevel. An example is an RDF object that is annotated such that it represents a data sheet that describes the performance of a Component in a particular context.
domainEntity: true

DNA Component
type: Class
subclass of: Component
equivalent class: Class
  intersection of: Component
  intersection of: Restriction
    on property: type
    some values from: deoxyribonucleic acid
  intersection of: Restriction
    on property: role
    some values from: DNA Role
  intersection of: Restriction
    on property: hasSequence
    all values from: DNA Sequence
comment: Represents a DNA component, with the type of SBO:DNA, the role of DNARole. It restricts instances to have the sequences with the correct DNA encoding.
domainEntity: true

meets
type: Class
subclass of: ConstraintRestriction
comment: The subject and object are connected at a shared boundary.

one
type: Class
subclass of: Cardinality
comment: Exactly one Feature in the derived Component SHOULD have a prov:wasDerivedFrom property that refers to the template Feature.

Component
type: Class
subclass of: TopLevel
subclass of: Restriction
  on property: type
  some values from: Thing
subclass of: Restriction
  on property: type
  some values from: Component Type
subclass of: Restriction
  on property: type
  on class: Component Type
  max qualified cardinality: 1
comment: The Component class represents the structural and/or functional entities of a biological design. The primary usage of this class is to represent entities with designed sequences, such as DNA, RNA, and proteins, but it can also be used to represent any other entity that is part of a design, such as simple chemicals, molecular complexes, strains, media, light, and abstract functional groupings of other entities.
domainEntity: true

hasConstraint
type: ObjectProperty
sub property of: directlyComprises
domain: Component
range: Constraint
comment: A Component MAY have any number of hasConstraint properties, each of type IRI, that MUST reference a Constraint object.

SBOLUnit
type: Class
subclass of: TopLevel
subclass of: Unit
replacementOf: Unit
comment: A wrapper class to enable the use of OM Units in SBOL. This class allows adding custom SBOL relationships.
domainEntity: true

Participation
type: Class
subclass of: Identified
subclass of: Restriction
  on property: role
  some values from: Thing
comment: Each Participation represents how a particular Feature behaves in its parent Interaction.
domainEntity: true

endedAtTime
type: DatatypeProperty
type: FunctionalProperty
domain: Activity
range: dateTime
comment: The prov:endedAtTime property is OPTIONAL and contains a DateTime value, indicating when the activity ended.

agent
type: ObjectProperty
type: FunctionalProperty
domain: Association
range: Agent
comment: The prov:agent property is REQUIRED and MUST contain a IRI that refers to an prov:Agent object.

NucleicAcidTopology
type: Class
subclass of: SBOLValue
equivalent class: Class
  union of: linear
  union of: circular
  union of: single
  union of: double
comment: Specifies the topology of a nucleic acid Component. Values are linear, circular, single, and double. For DNA Components with a fully specified sequence, topology information is recommended and should be provided using a term from the Topology Attribute branch of the Sequence Ontology.
Constant list: true

sequence_attribute
type: Class
subclass of: Thing
comment: An attribute describes a quality of sequence.

hasNamespace
type: ObjectProperty
type: FunctionalProperty
domain: TopLevel
comment: A TopLevel object MUST have precisely one hasNamespace property, which contains a URL that defines the namespace portion of URLs for this object and any child objects.

Encoding
type: Class
subclass of: SBOLValue
equivalent class: Class
  union of: nucleotide
  union of: protein
  union of: InChI
  union of: SMILES
comment: Controlled vocabulary for the types of encoding that can be used to represent the primary structure of a Component. The value of a Sequence's encoding property must be an instance of a class that is a subclass of Encoding.
Constant list: true

Agent
type: Class
subclass of: Thing
comment: An Agent is something that bears some form of responsibility for an Activity taking place, such as a person, organization, or software agent.

Vocabulary
type: AnnotationProperty
comment: If true, an object should be created for the container class.

Generic DNA Component
type: Class
subclass of: DNA Component
equivalent class: Class
  intersection of: DNA Component
  intersection of: Restriction
    on property: role
    some values from: sequence_feature
comment: Represents a generic DNA component, with the role of SO:sequence_feature.
domainEntity: true

hasAttachment
type: ObjectProperty
domain: TopLevel
range: Attachment
comment: A TopLevel object can have zero or more hasAttachment properties, each of type IRI specifying an Attachment object.

StimulatedParticipation
type: Class
subclass of: Participation
equivalent class: Class
  intersection of: Participation
  intersection of: Restriction
    on property: role
    some values from: stimulated
comment: Represents a participation of a feature that is stimulated in an interaction, with the role of SBO:stimulated.
domainEntity: true

simple chemical
type: Class
subclass of: physical entity representation
comment: Simple, non-repetitive chemical entity.

terminator
type: Class
subclass of: sequence_feature
comment: Moved from transcription_regulatory_region (SO:0001679) to transcriptional_cis_regulatory_region (SO:0001055) by Dave Sant on Feb 11, 2021 when transcription_regulatory_region was merged into transcriptional_cis_regulatory_region to be consistent with GO and reduce redundancy as part of the GREEKC consortium. See GitHub Issue #527. The sequence of DNA located either at the end of the transcript that causes RNA polymerase to terminate transcription.

overrideRoles
type: Class
subclass of: RoleIntegration
comment: In the context of this SubComponent, ignore any role given for the included Component. Instead use only the set of zero or more role properties given for this SubComponent.

finishes
type: Class
subclass of: ConstraintRestriction
comment: The start of the location for subject is after the start of the location for object and the end of the location for subject is equal to the end of the location for object.

SBOLUnitMultiplication
type: Class
subclass of: SBOLUnit
subclass of: UnitMultiplication
replacementOf: UnitMultiplication
comment: A wrapper class to enable the use of OM UnitMultiplications in SBOL. This class allows adding custom SBOL relationships.
domainEntity: true

SMILES
type: Class
subclass of: Format
comment: Chemical structure specified in Simplified Molecular Input Line Entry System (SMILES) line notation.

non-covalent complex
type: Class
subclass of: physical entity representation
comment: Entity composed of several independant components that are not linked by covalent bonds.

SBOL Association
type: Class
subclass of: Identified
subclass of: Association
replacementOf: Association
comment: A wrapper for the PROV-O Association class. The purpose of this class is to allow for the inclusion of SBOL-specific properties on PROV Associations, such as the association of an Association with a particular Component or Interaction.
domainEntity: true

protein
type: Class
subclass of: Format
comment: Alphabet for a protein sequence with possible ambiguity, unknown positions and non-sequence characters.

ProductParticipation
type: Class
subclass of: Participation
equivalent class: Class
  intersection of: Participation
  intersection of: Restriction
    on property: role
    some values from: product
comment: Represents a participation of a feature that is a product in an interaction, with the role of SBO:product.
domainEntity: true

hasExponent
type: DatatypeProperty
type: FunctionalProperty
domain: UnitExponentiation
range: integer
comment: The om:hasExponent property is REQUIRED and MUST contain an xsd:integer.

hasMeasure
type: ObjectProperty
sub property of: directlyComprises
domain: Identified
range: SBOL Measure
range: Measure

Feature
type: Class
subclass of: Identified
comment: The Feature class, is used to compose Component objects into a structural or functional hierarchy. Feature is an abstract class; only its child classes are actually instantiated.
domainEntity: true

roleIntegration
type: ObjectProperty
type: FunctionalProperty
domain: SubComponent
comment: A roleIntegration specifies the relationship between a SubComponent instance's own set of role properties and the set of role properties on the included Component.

qualifiedUsage
type: ObjectProperty
domain: Activity
range: Usage
comment: An prov:Activity MAY have one or more prov:qualifiedUsage properties, each of type IRI that refers to an prov:Usage object.

gene
type: Class
subclass of: sequence_feature
comment: This term is mapped to MGED. Do not obsolete without consulting MGED ontology. A gene may be considered as a unit of inheritance. A region (or regions) that includes all of the sequence elements necessary to encode a functional transcript. A gene may include regulatory regions, transcribed regions and/or other functional sequence regions.

variantMeasure
type: ObjectProperty
domain: VariableFeature
range: Measure
comment: A VariableFeature object can have zero or more variantMeasure properties, each of type IRI, specifying a om:Measure object. This property specifies numerical values that are options to be applied to the variable Feature from the template when deriving a new Component.

SBOL Usage
type: Class
subclass of: Identified
subclass of: Usage
subclass of: Restriction
  on property: entity
  some values from: Thing
replacementOf: Usage
comment: A wrapper for the PROV-O Usage class. The purpose of this class is to allow for the inclusion of SBOL-specific properties on PROV Usages, such as the association of a Usage with a particular Component or Interaction.
domainEntity: true

elements
type: DatatypeProperty
type: FunctionalProperty
domain: Sequence
range: string
comment: The elements property is an OPTIONAL String of characters that represents the constituents of a biological or chemical molecule.

stimulated
type: Class
subclass of: participant role
comment: Conceptual or material entity that is the object of a stimulation process, and is acted upon by a stimulator.

TopLevel
type: Class
subclass of: Identified
subclass of: Restriction
  on property: hasNamespace
  some values from: Thing
comment: TopLevel is an abstract class that is extended by any Identified class that can be found at the top level of an SBOL document or file.

contains
type: Class
subclass of: ConstraintRestriction
comment: The subject contains the object and they might or might not share a boundary.

replacementOf
type: AnnotationProperty
comment: If specified, create the entity name according to the value of this property. E.g. for sbol3:SBOLActivity otol:replacementOf prov:Activity, create the entities using the Activity name only.

sameOrientationAs
type: Class
subclass of: OrientationRestriction
comment: The subject and object Component objects MUST have the same orientation.

SBOLPrefixedUnit
type: Class
subclass of: SBOLUnit
subclass of: PrefixedUnit
replacementOf: PrefixedUnit
comment: A wrapper class to enable the use of OM PrefixedUnits in SBOL. This class allows adding custom SBOL relationships.
domainEntity: true

variantDerivation
type: ObjectProperty
domain: VariableFeature
range: CombinatorialDerivation
comment: A VariableFeature object can have zero or more variantDerivation properties, each of type IRI, specifying a CombinatorialDerivation object. This property enables the specification of Component objects derived in accordance with another CombinatorialDerivation to serve as options when deriving a new Feature for the variable Feature from the template.

promoter
type: Class
subclass of: sequence_feature
comment: This term is mapped to MGED. Do not obsolete without consulting MGED ontology. The region on a DNA molecule involved in RNA polymerase binding to initiate transcription. Moved from is_a: SO:0001055 transcriptional_cis_regulatory_region as per request from GREEKC initiative in August 2020. Merged with RNA_polymerase_promoter (SO:0001203) Aug 2020. Moved up one level from is_a CRM (SO:0000727) to is_a transcriptional_cis_regulatory_region (SO:0001055) as part of the GREEKC work January 2021. Pascale Gaudet from Gene Ontology pointed out that CRM can be located upstream of the promoter and therefore cannot include the promoter. A regulatory_region composed of the TSS(s) and binding sites for TF_complexes of the core transcription machinery. A region (DNA) to which RNA polymerase binds, to begin transcription.

startedAtTime
type: DatatypeProperty
type: FunctionalProperty
domain: Activity
range: dateTime
comment: The prov:startedAtTime property is OPTIONAL and contains a DateTime value, indicating when the activity started. If this property is present, then the prov:endedAtTime property is REQUIRED.

SequentialRestriction
type: Class
subclass of: ConstraintRestriction
equivalent class: Class
  union of: precedes
  union of: strictlyPrecedes
  union of: meets
  union of: overlaps
  union of: contains
  union of: strictlyContains
  union of: equals
  union of: starts
  union of: finishes
comment: Sequential restrictions are a subset of the ConstraintRestriction class that are used to express relative, sequence-based positions of pairs of Features within a template Component. The value of a SequentialRestriction must be one of the following: precedes, strictlyPrecedes, meets, overlaps, contains, strictlyContains, equals, starts, or finishes.
Constant list: true

stimulator
type: Class
subclass of: modifier
comment: Synonym: activator

Simple Chemical Component
type: Class
subclass of: Component
equivalent class: Class
  intersection of: Component
  intersection of: Restriction
    on property: type
    some values from: simple chemical
  intersection of: Restriction
    on property: role
    some values from: Small Molecule Role
  intersection of: Restriction
    on property: hasSequence
    all values from: Class
      union of: InChI Sequence
      union of: SMILES Sequence
comment: Represents a simple chemical component, with the type of SBO:simple_chemical, the role of SmallMoleculeRole. It restricts instances to have the sequences with the correct chemical encoding.
domainEntity: true

role
type: ObjectProperty
domain: Class
  union of: Component
  union of: Feature
  union of: Participation
comment: This property can be used in a Component, Feature or Participation. A Component MAY have any number of role properties, each of type IRI, that MUST identify terms from ontologies that are consistent with the type property of the Component. Each Feature can have zero or more role property IRIs describing the purpose or potential function of this Feature in the context of its parent Component. A Participation is REQUIRED to have one or more role properties, each of type IRI, that describes the behavior of a Participation (and by extension its referenced Feature) in the context of its parent Interaction.

SBOL Measure
type: Class
subclass of: Identified
subclass of: Measure
replacementOf: Measure
comment: A wrapper for the OM Measure class. The purpose of this class is to allow for the inclusion of SBOL-specific properties on OM Measures, such as the association of a Measure with a particular Component or Interaction.
domainEntity: true

InChI
type: Class
subclass of: Format
comment: Chemical structure specified in IUPAC International Chemical Identifier (InChI) line notation.

Implementation
type: Class
subclass of: TopLevel
comment: An Implementation represents a realized instance of a Component, such a sample of DNA resulting from fabricating a genetic design or an aliquot of a specified reagent.
domainEntity: true

hasVariableFeature
type: ObjectProperty
sub property of: directlyComprises
domain: CombinatorialDerivation
range: VariableFeature
comment: A CombinatorialDerivation object can have zero or more hasVariableFeature properties, each of type IRI, specifying a VariableFeature. The set of hasVariableFeature properties MUST NOT contain two or more VariableFeature objects that refer to the same template.

CellML
type: Class
subclass of: Format
comment: CellML, the format for mathematical models of biological and other networks.

TemplateParticipation
type: Class
subclass of: Participation
equivalent class: Class
  intersection of: Participation
  intersection of: Restriction
    on property: role
    some values from: template
comment: Represents a participation of a feature that is a template in an interaction, with the role of SBO:template.
domainEntity: true

material entity role
type: Class
subclass of: Thing
comment: A role is particular behaviour which a material entity may exhibit.

non-covalent binding
type: Class
subclass of: biochemical reaction
comment: Synonym: association

logical framework
type: Class
subclass of: modelling framework
comment: Modelling approach, pioneered by Rene Thomas and Stuart Kaufman, where the evolution of a system is described by the transitions between discrete activity states of 'genes' that control each other.

hasPrefix
type: ObjectProperty
type: FunctionalProperty
domain: PrefixedUnit
range: Prefix
comment: The om:hasPrefix property is REQUIRED and MUST contain a IRI that refers to a om:Prefix.

starts
type: Class
subclass of: ConstraintRestriction
comment: The start of the location for subject is equal to the start of the location for object and the end of the location for subject is before the end of the location for object.

hasBase
type: ObjectProperty
type: FunctionalProperty
domain: UnitExponentiation
range: Unit
comment: The om:hasBase property is REQUIRED and MUST contain a IRI that refers to another om:Unit.

orientation
type: ObjectProperty
type: FunctionalProperty
domain: Class
  union of: Feature
  union of: Location
range: Orientation
comment: The orientation property is OPTIONAL and has a data type of IRI.

Component Role
type: Class
subclass of: SBOLValue
comment: Controlled vocabulary for the roles that a Component can play in a design. The value of a Component's role property must be an instance of a class that is a subclass of ComponentRole.

VariableFeature
type: Class
subclass of: Identified
subclass of: Restriction
  on property: cardinality
  some values from: Cardinality
subclass of: Restriction
  on property: variable
  some values from: Feature
comment: VariableFeature class specifies a variable and set of values that will replace one of the Feature objects in the template of a CombinatorialDerivation. The variable is specified by the variable property, and the set of values is defined by the union of Component objects referred to by the variant, variantCollection, and variantDerivation properties.
domainEntity: true

CombinatorialDerivationStrategy
type: Class
subclass of: SBOL Term
equivalent class: Class
  union of: enumerate
  union of: sample
comment: Controlled vocabulary for the strategies that can be used to derive new Components from a template Component.
Constant list: true

template
type: Class
subclass of: participant role
comment: An entity that acts as the starting material for genetic production (http://identifiers.org/biomodels.sbo/SBO:0000589).

hashAlgorithm
type: DatatypeProperty
type: FunctionalProperty
domain: Attachment
range: string
comment: The hashAlgorithm property is OPTIONAL and MAY contain the name of the hash algorithm used to generate the value of the hash property. The value of this property SHOULD be a hash name string from the IANA Named Information Hash Algorithm Registry, of which sha3-256 is currently RECOMMENDED. If the hash property is set, then hashAlgorithm MUST be set as well.

discrete framework
type: Class
subclass of: modelling framework
comment: Modelling approach where the quantities of participants are considered discrete, and represented by integer values. The associated simulation methods can be deterministic or stochastic.

zeroOrMore
type: Class
subclass of: Cardinality
comment: Any number of Feature objects in the derived Component MAY have prov:wasDerivedFrom properties that refer to the template Feature.

PrefixedUnit
type: Class
subclass of: Unit
subclass of: Restriction
  on property: hasUnit
  some values from: Unit
subclass of: Restriction
  on property: hasPrefix
  some values from: Prefix
comment: The purpose of the om:PrefixedUnit class is to describe a unit of measure that is the multiplication of another unit of measure and a factor represented by a standard prefix such as "milli", "centi", "kilo", etc.

RNA Sequence
type: Class
subclass of: Sequence With Elements
equivalent class: Class
  intersection of: Sequence With Elements
  intersection of: Restriction
    on property: encoding
    some values from: nucleotide
comment: Represents an RNA sequence, with the encoding of EDAM format 1207. The elements property MUST contain only characters from the IUPAC RNA character set: A, C, G, U, M, R, W, S, Y, K, V, H, D, B, N and -.
domainEntity: true

sample
type: Class
subclass of: CombinatorialDerivationStrategy
comment: Sample is a strategy for deriving new Components from a template Component. The sample strategy specifies that a new Component should be derived for a random sample of the possible combinations of values for the variable specified by the VariableFeature objects in the template Component.

SingularUnit
type: Class
subclass of: Unit
comment: The purpose of the om:SingularUnit class is to describe a unit of measure that is not explicitly represented as a combination of multiple units, but could be equivalent to such a representation.

Association
type: Class
subclass of: Thing
subclass of: Restriction
  on property: agent
  some values from: Agent
comment: An Association is used to link an Activity to one or more Agents, and to describe the role of each Agent in the execution of the Activity. An Association is linked through prov:qualifiedAssociation to an Activity, and is linked through prov:agent to one or more Agents.

circular
type: Class
subclass of: sequence_attribute
comment: Attributes added to describe the different kinds of replicon. SO workshop, September 2006. A quality of a nucleotide polymer that has no terminal nucleotide residues.

description
type: DatatypeProperty
type: FunctionalProperty
domain: Identified
range: string
comment: The description property is OPTIONAL and has a data type of String. This property is intended to contain a more thorough text description of an Identified object.

Cardinality
type: Class
subclass of: SBOL Term
equivalent class: Class
  union of: zeroOrOne
  union of: one
  union of: zeroOrMore
  union of: OneOrMore
comment: Provides a controlled vocabulary for describing restrictions between pairs of Feature objects, including identity, topology, sequence order, and orientation relationships.
Constant list: true

variable
type: ObjectProperty
type: FunctionalProperty
domain: VariableFeature
range: Feature
comment: The variable property is REQUIRED and MUST contain a IRI that refers to a template Feature in the template Component referred to by this VariableFeature's parent CombinatorialDerivation

functional compartment
type: Class
subclass of: participant role
comment: Logical or physical subset of the event space that contains pools, that is sets of participants considered identical when it comes to the event they are involved into. A compartment can have any number of dimensions, including 0, and be of any size including null.

variantCollection
type: ObjectProperty
domain: VariableFeature
range: Collection
comment: A VariableFeature object can have zero or more variantCollection properties, each of type IRI, specifying a Collection object. Such a Collection MUST NOT contain any objects besides Component objects or Collection objects that themselves contain only Component or Collection objects. This property enables the specification of existing groups of Component objects to serve as options.

UnitDivision
type: Class
subclass of: Unit
subclass of: Restriction
  on property: hasNumerator
  some values from: Unit
subclass of: Restriction
  on property: hasDenominator
  some values from: Unit
comment: The purpose of the om:UnitDivision class is to describe a unit of measure that is the division of one unit of measure by another.

Constant list
type: AnnotationProperty
comment: If true, create an enum list.

precedes
type: Class
subclass of: ConstraintRestriction
comment: The start of the location for subject is less than the start of the location for object.

DNA Sequence
type: Class
subclass of: Sequence With Elements
equivalent class: Class
  intersection of: Sequence With Elements
  intersection of: Restriction
    on property: encoding
    some values from: nucleotide
comment: Represents a DNA sequence, with the encoding of EDAM format 1207. The elements property MUST contain only characters from the IUPAC DNA character set: A, C, G, T, U, M, R, W, S, Y, K, V, H, D, B, N and -.
domainEntity: true

hasTerm1
type: ObjectProperty
type: FunctionalProperty
domain: UnitMultiplication
range: Unit
comment: The om:hasTerm1 property is REQUIRED and MUST contain a IRI that refers to another om:Unit. This om:Unit is the first multiplication term.

modified
type: Class
subclass of: participant role
comment: Conceptual or material entity that is the object of a modification process, and is acted upon by a modifier.

enumerate
type: Class
subclass of: CombinatorialDerivationStrategy
comment: Enumerate is a strategy for deriving new Components from a template Component. The enumerate strategy specifies that a new Component should be derived for every possible combination of values for the variable specified by the VariableFeature objects in the template Component.

InteractionType
type: Class
subclass of: SBOLValue
equivalent class: Class
  union of: inhibition
  union of: stimulation
  union of: biochemical reaction
  union of: non-covalent binding
  union of: degradation
  union of: genetic production
  union of: control
comment: Provides a vocabulary to choose the interaction type of behavior represented by an Interaction. Interaction types are typically identified using IRIs, such as terms from the Systems Biology Ontology.
Constant list: true

genetic production
type: Class
subclass of: occurring entity representation
comment: A composite biochemical process through which a gene sequence is fully converted into mature gene products. These gene products may include RNA species as well as proteins, and the process encompasses all intermediate steps required to generate the active form of the gene product.

Plan
type: Class
subclass of: Thing
comment: A Plan is used to describe a set of actions or steps intended to achieve a specific goal or outcome.

InhibitorParticipant
type: Class
subclass of: Participation
equivalent class: Class
  intersection of: Participation
  intersection of: Restriction
    on property: role
    some values from: inhibitor
comment: Represents a participation of a feature that inhibits an interaction, with the role of SBO:inhibitor.
domainEntity: true

input
type: ObjectProperty
domain: Interface
range: Feature
comment: An Interface MAY have any number of input properties, each of type IRI, that MUST reference a Feature object in the same Component.

symbol
type: DatatypeProperty
type: FunctionalProperty
domain: Class
  union of: Unit
  union of: Prefix
range: string
comment: This property can be used in a Unit or Prefix. The om:symbol property is REQUIRED and MUST contain a String. This String is commonly used to abbreviate the name of the unit of measure or prefix.

Attachment
type: Class
subclass of: TopLevel
subclass of: Restriction
  on property: source
  some values from: Thing
comment: The purpose of the Attachment class is to serve as a general container for data files, especially experimental data files. It provides a means for linking files and metadata to SBOL designs.
domainEntity: true

SBOLSingularUnit
type: Class
subclass of: SBOLUnit
subclass of: SingularUnit
replacementOf: SingularUnit
comment: A wrapper class to enable the use of OM SingularUnits in SBOL. This class allows adding custom SBOL relationships.
domainEntity: true

hasInteraction
type: ObjectProperty
sub property of: directlyComprises
domain: Component
range: Interaction
comment: A Component MAY have any number of hasInteraction properties, each of type IRI, that MUST reference an Interaction object.

ControlInteraction
type: Class
subclass of: Interaction
equivalent class: Class
  intersection of: Interaction
  intersection of: Restriction
    on property: type
    some values from: control
  intersection of: Restriction
    on property: hasParticipation
    some values from: ModifierParticipation
  intersection of: Restriction
    on property: hasParticipation
    some values from: ModifiedParticipation
comment: Represents a control interaction, with the type of SBO:control, that involves at least one modifier participation and at least one modified participation.
domainEntity: true

name
type: DatatypeProperty
type: FunctionalProperty
domain: Identified
range: string
comment: The name property is OPTIONAL and has a data type of String. This property is intended to be displayed to a human when visualizing an Identified object.

Sequence With Elements
type: Class
subclass of: Sequence
equivalent class: Class
  intersection of: Sequence
  intersection of: Restriction
    on property: elements
    some values from: string
  intersection of: Restriction
    on property: encoding
    some values from: Encoding
comment: A SequenceWithElements is a Sequence that contains elements and an encoding.

verifyIdentical
type: Class
subclass of: ConstraintRestriction
comment: The subject and object, after tracing through any layers of ComponentReference, MUST both refer to SubComponent objects with the same instanceOf value or both refer to ExternallyDefined objects with the same definition. Example: a promoter included via two different subsystems must be the identical.

ModelFramework
type: Class
subclass of: SBOLValue
equivalent class: Class
  union of: continuous framework
  union of: discrete framework
  union of: constraint-based framework
  union of: logical framework
  union of: hybrid framework
comment: Provides a vocabulary to choose the modeling framework of a Model. Model frameworks are typically identified using IRIs, such as terms from the Systems Biology Ontology.
Constant list: true

single
type: Class
subclass of: sequence_attribute
comment: Attributes added to describe the different kinds of replicon. SO workshop, September 2006. When a nucleotide polymer has only one strand.

molecular_function
type: Class
subclass of: Thing
comment: A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs.

Small Molecule Role
type: Class
subclass of: Component Role
equivalent class: Class
  union of: material entity role
  union of: effector
comment: Controlled vocabulary for the roles that a Small Molecule Component can play in a design. The value of a Component's role property must be an instance of a class that is a subclass of SmallMoleculeRole.
Constant list: true

SBOL Activity
type: Class
subclass of: TopLevel
subclass of: Activity
replacementOf: Activity
comment: A wrapper for the PROV Activity class. The purpose of this class is to allow for the inclusion of SBOL-specific properties on PROV Activities, such as the association of an Activity with a particular Component or Interaction.
domainEntity: true

Transcription Factor Protein Component
type: Class
subclass of: Protein Component
equivalent class: Class
  intersection of: Protein Component
  intersection of: Restriction
    on property: role
    some values from: DNA-binding transcription factor activity
comment: Represents a transcription factor protein component, with the role of GO:DNA-binding transcription factor activity.
domainEntity: true

hadRole
type: ObjectProperty
domain: Class
  union of: Usage
  union of: Association
comment: An prov:Usage MAY have one or more prov:hadRole properties, each of type IRI that refers to particular term(s) describing the usage of an prov:Entity referenced by the prov:entity property.

forward
type: Class
subclass of: sequence_attribute
comment: Forward is an attribute of the feature, where the feature is in the 5' to 3' direction.

inChildOf
type: ObjectProperty
type: FunctionalProperty
domain: ComponentReference
range: SubComponent

SMILES Sequence
type: Class
subclass of: Sequence With Elements
equivalent class: Class
  intersection of: Sequence With Elements
  intersection of: Restriction
    on property: encoding
    some values from: SMILES
comment: Represents a chemical structure using the Simplified Molecular-Input Line-Entry System (SMILES) format, with the encoding of EDAM format 1196. The elements property MUST contain a valid SMILES string.
domainEntity: true

ModifiedParticipation
type: Class
subclass of: Participation
equivalent class: Class
  intersection of: Participation
  intersection of: Restriction
    on property: role
    some values from: modified
comment: Represents a participation of a feature that is modified in an interaction, with the role of SBO:modified.
domainEntity: true

alternativeSymbol
type: DatatypeProperty
domain: Class
  union of: Unit
  union of: Prefix
range: string
comment: This property can be used in a Unit or Prefix. The om:alternativeSymbol property is OPTIONAL and MAY contain a set of Strings. This property can be used to specify alternative abbreviations other than that specified using the om:symbol property

SequenceFeature
type: Class
subclass of: Feature
subclass of: Restriction
  on property: hasLocation
  some values from: Location
comment: The SequenceFeature class describes one or more regions of interest on the Sequence objects referred to by its parent Component.
domainEntity: true

hasSequence
type: ObjectProperty
domain: Class
  union of: Component
  union of: Location
range: Sequence
comment: This property can be used in a Component or Location. A Component MAY have any number of hasSequence properties, each of type IRI, that MUST reference a Sequence object. In a Location, the hasSequence property is REQUIRED and MUST contain the IRI of a Sequence object.

OneOrMore
type: Class
subclass of: Cardinality
comment: At least one Feature in the derived Component SHOULD have a prov:wasDerivedFrom property that refers to the template Feature.

object
type: ObjectProperty
type: FunctionalProperty
domain: Constraint
range: Feature
comment: The object property is REQUIRED and MUST contain a IRI that refers to a Feature contained by the same parent Component that contains the Constraint. This Feature MUST NOT be the same Feature that the Constraint refers to via its subject property.

Protein Sequence
type: Class
subclass of: Sequence With Elements
equivalent class: Class
  intersection of: Sequence With Elements
  intersection of: Restriction
    on property: encoding
    some values from: protein
comment: Represents a protein sequence, with the encoding of EDAM format 1208. The elements property MUST contain only characters from the IUPAC Protein character set: A, C, D, E, F, G, H, I, K, L, M, N, P, Q, R, S, T, V, W, Y and -.
domainEntity: true

hasNumericalValue
type: DatatypeProperty
type: FunctionalProperty
domain: Measure
range: decimal
comment: The om:hasNumericalValue property is REQUIRED and MUST contain a single xsd:float.

constraint-based framework
type: Class
subclass of: modelling framework
comment: Modelling approach which captures bounds on the possible behavior of a system, which may be further reduced using an objective function.

hasFactor
type: DatatypeProperty
domain: Class
  union of: SingularUnit
  union of: Prefix
range: decimal
comment: This property can be used in a SingularUnit or Prefix. For SingularUnit, the om:hasFactor property is OPTIONAL and MAY contain a xsd:float. If the om:hasFactor property of a om:SingularUnit is non-empty, then its om:hasUnit property SHOULD also be non-empty. For Prefix, The om:hasFactor property is REQUIRED and MUST contain an xsd:float.

biochemical reaction
type: Class
subclass of: biochemical or transport reaction
comment: An event involving one or more chemical entities that modifies the electrochemical structure of at least one of the participants.

alternativeLabel
type: DatatypeProperty
domain: Class
  union of: Unit
  union of: Prefix
range: string
comment: This property can be used in a Unit or Prefix. The om:alternativeLabel property is OPTIONAL and MAY contain a set of Strings. This property can be used to specify alternative common names other than that specified using om:label property.

PromoterParticipation
type: Class
subclass of: Participation
equivalent class: Class
  intersection of: Participation
  intersection of: Restriction
    on property: role
    some values from: promoter
comment: Represents a participation of a feature that is a promoter in an interaction, with the role of SBO:promoter.
domainEntity: true

deoxyribonucleic acid
type: Class
subclass of: physical entity representation
comment: Synonym: DNA

covers
type: Class
subclass of: ConstraintRestriction
comment: The subject contains the object but also shares a boundary.

ParticipationRole
type: Class
subclass of: SBOLValue
equivalent class: Class
  union of: inhibitor
  union of: inhibited
  union of: stimulator
  union of: stimulated
  union of: reactant
  union of: product
  union of: promoter
  union of: modifier
  union of: template
comment: Provides a vocabulary to choose the role of a Participation in an Interaction. Participation roles are typically identified using IRIs, such as terms from the Systems Biology Ontology.
Constant list: true

double
type: Class
subclass of: sequence_attribute
comment: Attributes added to describe the different kinds of replicon. SO workshop, September 2006. When a nucleotide polymer has two strands that are reverse-complement to one another and pair together.

reverse
type: Class
subclass of: sequence_attribute
comment: Reverse is an attribute of the feature, where the feature is in the 3' to 5' direction. Again could be applied to primer.

ribosome_entry_site
type: Class
subclass of: sequence_feature
comment: Region in mRNA where ribosome assembles.

ExternallyDefined
type: Class
subclass of: Feature
subclass of: Restriction
  on property: type
  some values from: Thing
subclass of: Restriction
  on property: definition
  some values from: Thing
comment: The ExternallyDefined class has been introduced so that external definitions in databases like ChEBI or UniProt can be referenced.
domainEntity: true

modelling framework
type: Class
subclass of: systems biology representation
comment: Set of assumptions that underlay a mathematical description.

Terminator DNA Component
type: Class
subclass of: DNA Component
equivalent class: Class
  intersection of: DNA Component
  intersection of: Restriction
    on property: role
    some values from: terminator
comment: Represents a terminator DNA component, with the role of SO:terminator.
domainEntity: true

inhibition
type: Class
subclass of: control
comment: Negative modulation of the execution of a process.

SBOLValue
type: Class
subclass of: Thing
Vocabulary: true

BioPAX
type: Class
subclass of: Format
comment: BioPAX is an exchange format for pathway data, with its data model defined in OWL.

SBOL Term
type: Class
subclass of: Thing
comment: The SBOLTerm class is a way to create a placeholder for a term in an SBOL-controlled vocabulary.
Vocabulary: true

Prefix
type: Class
subclass of: Thing
subclass of: Restriction
  on property: label
  some values from: string
subclass of: Restriction
  on property: symbol
  some values from: string
subclass of: Restriction
  on property: hasFactor
  some values from: decimal
comment: om:Prefix is an abstract class that is extended by other classes to describe factors that are commonly represented by standard unit prefixes.

restriction
type: ObjectProperty
type: FunctionalProperty
domain: Constraint
comment: The restriction property is REQUIRED and has a data type of IRI. This property MUST indicate the type of restriction on the locations, orientations, or identities of the subject and object Feature objects in relation to each other.

hasNumerator
type: ObjectProperty
type: FunctionalProperty
domain: UnitDivision
range: Unit
comment: The om:hasNumerator property is REQUIRED and MUST contain a IRI that refers to another om:Unit.

hybrid framework
type: Class
subclass of: modelling framework
comment: Modeling approach which combines multiple canonical modeling frameworks. For example, a hybrid model could consider both continuous (represented by real values) and discrete (represented by integers) participants. Hybrid models are executed with hybrid simulation algorithms. For example, a hybrid continuous-discrete model may be simulation using a combination of stochastic simulation and ordinary differential equations.

zeroOrOne
type: Class
subclass of: Cardinality
comment: No more than one Feature in the derived Component SHOULD have a prov:wasDerivedFrom property that refers to the template Feature.

TopologyRestriction
type: Class
subclass of: ConstraintRestriction
equivalent class: Class
  union of: isDisjointFrom
  union of: strictlyContains
  union of: contains
  union of: equals
  union of: meets
  union of: covers
  union of: overlaps
comment: Topology restrictions are a subset of the ConstraintRestriction class that are used to express topological relationships between pairs of Features within a template Component. The value of a TopologyRestriction must be one of the following: contains, strictlyContains, equals, covers, overlaps, meets, or isDisjointFrom.
Constant list: true

BiochemicalReactionInteraction
type: Class
subclass of: Interaction
equivalent class: Class
  intersection of: Interaction
  intersection of: Restriction
    on property: type
    some values from: biochemical reaction
  intersection of: Restriction
    on property: hasParticipation
    on class: ModifierParticipation
    min qualified cardinality: 0
  intersection of: Restriction
    on property: hasParticipation
    on class: ModifiedParticipation
    min qualified cardinality: 0
  intersection of: Restriction
    on property: hasParticipation
    on class: ProductParticipation
    min qualified cardinality: 0
  intersection of: Restriction
    on property: hasParticipation
    on class: ReactantParticipation
    min qualified cardinality: 0
comment: Represents a biochemical reaction interaction, with the type of SBO:biochemical_reaction, that involves zero or more modifier, modified, product, and reactant participations.
domainEntity: true

SBOLCompoundUnit
type: Class
subclass of: SBOLUnit
subclass of: CompoundUnit
replacementOf: CompoundUnit
comment: A wrapper class to enable the use of OM CompoundUnits in SBOL. This class allows adding custom SBOL relationships.
domainEntity: true

modifier
type: Class
subclass of: participant role
comment: Substance that changes the velocity of a process without itself being consumed or transformed by the reaction.

CompoundUnit
type: Class
subclass of: Unit
comment: om:CompoundUnit is an abstract class that is extended by other classes to describe units of measure that can be represented as combinations of multiple other units of measure.

source
type: ObjectProperty
type: FunctionalProperty
domain: Class
  union of: Model
  union of: Attachment
comment: The source property is REQUIRED and MUST contain a IRI reference to the source file.

reverseComplement
type: Class
subclass of: Orientation
comment: Reverse complement is an attribute of the feature, where the feature is in the 3' to 5' direction.

oppositeOrientationAs
type: Class
subclass of: OrientationRestriction
comment: The subject and object Component objects MUST have opposite orientations.

comprises
type: ObjectProperty
type: TransitiveProperty
comment: The comprises property can be used to express parent-child compositional relationships as a custom approach if needed.