Package org.uniprot.uniprot

Class FeatureType

java.lang.Object

org.uniprot.uniprot.FeatureType

public class FeatureType
extends Object

Describes different types of sequence annotations. Equivalent to the flat file FT-line.

Java class for featureType complex type

.

The following schema fragment specifies the expected content contained within this class.

 <complexType name="featureType">
   <complexContent>
     <restriction base="{http://www.w3.org/2001/XMLSchema}anyType">
       <sequence>
         <element name="original" type="{http://www.w3.org/2001/XMLSchema}string" minOccurs="0"/>
         <element name="variation" type="{http://www.w3.org/2001/XMLSchema}string" maxOccurs="unbounded" minOccurs="0"/>
         <element name="location" type="{https://uniprot.org/uniprot}locationType"/>
         <element name="ligand" type="{https://uniprot.org/uniprot}ligandType" minOccurs="0"/>
         <element name="ligandPart" type="{https://uniprot.org/uniprot}ligandPartType" minOccurs="0"/>
       </sequence>
       <attribute name="type" use="required">
         <simpleType>
           <restriction base="{http://www.w3.org/2001/XMLSchema}string">
             <enumeration value="active site"/>
             <enumeration value="binding site"/>
             <enumeration value="chain"/>
             <enumeration value="coiled-coil region"/>
             <enumeration value="compositionally biased region"/>
             <enumeration value="cross-link"/>
             <enumeration value="disulfide bond"/>
             <enumeration value="DNA-binding region"/>
             <enumeration value="domain"/>
             <enumeration value="glycosylation site"/>
             <enumeration value="helix"/>
             <enumeration value="initiator methionine"/>
             <enumeration value="lipid moiety-binding region"/>
             <enumeration value="modified residue"/>
             <enumeration value="mutagenesis site"/>
             <enumeration value="non-consecutive residues"/>
             <enumeration value="non-terminal residue"/>
             <enumeration value="peptide"/>
             <enumeration value="propeptide"/>
             <enumeration value="region of interest"/>
             <enumeration value="repeat"/>
             <enumeration value="non-standard amino acid"/>
             <enumeration value="sequence conflict"/>
             <enumeration value="sequence variant"/>
             <enumeration value="short sequence motif"/>
             <enumeration value="signal peptide"/>
             <enumeration value="site"/>
             <enumeration value="splice variant"/>
             <enumeration value="strand"/>
             <enumeration value="topological domain"/>
             <enumeration value="transit peptide"/>
             <enumeration value="transmembrane region"/>
             <enumeration value="turn"/>
             <enumeration value="unsure residue"/>
             <enumeration value="zinc finger region"/>
             <enumeration value="intramembrane region"/>
           </restriction>
         </simpleType>
       </attribute>
       <attribute name="id" type="{http://www.w3.org/2001/XMLSchema}string" />
       <attribute name="description" type="{http://www.w3.org/2001/XMLSchema}string" />
       <attribute name="evidence" type="{https://uniprot.org/uniprot}intListType" />
       <attribute name="ref" type="{http://www.w3.org/2001/XMLSchema}string" />
     </restriction>
   </complexContent>
 </complexType>
 

Field Summary

Fields

Modifier and Type	Field	Description
protected String	description
protected List<Integer>	evidence
protected String	id
protected LigandType	ligand	Describes the chemical entity that is bound in annotations that describe binding sites.
protected LigandPartType	ligandPart	Describes the specific part of a molecule that is bound in annotations that describe binding sites.
protected LocationType	location	Describes the sequence coordinates of the annotation.
protected String	original	Describes the original sequence in annotations that describe natural or artifical sequence variations.
protected String	ref
protected String	type	Describes the type of a sequence annotation.
protected List<String>	variation	Describes the variant sequence in annotations that describe natural or artifical sequence variations.

Constructor Summary

Constructors

Constructor	Description
FeatureType()

Method Summary

Modifier and Type	Method	Description
String	getDescription()	Gets the value of the description property.
List<Integer>	getEvidence()	Gets the value of the evidence property.
String	getId()	Gets the value of the id property.
LigandType	getLigand()	Describes the chemical entity that is bound in annotations that describe binding sites.
LigandPartType	getLigandPart()	Describes the specific part of a molecule that is bound in annotations that describe binding sites.
LocationType	getLocation()	Describes the sequence coordinates of the annotation.
String	getOriginal()	Describes the original sequence in annotations that describe natural or artifical sequence variations.
String	getRef()	Gets the value of the ref property.
String	getType()	Describes the type of a sequence annotation.
List<String>	getVariation()	Describes the variant sequence in annotations that describe natural or artifical sequence variations.
void	setDescription(String value)	Sets the value of the description property.
void	setId(String value)	Sets the value of the id property.
void	setLigand(LigandType value)	Sets the value of the ligand property.
void	setLigandPart(LigandPartType value)	Sets the value of the ligandPart property.
void	setLocation(LocationType value)	Sets the value of the location property.
void	setOriginal(String value)	Sets the value of the original property.
void	setRef(String value)	Sets the value of the ref property.
void	setType(String value)	Sets the value of the type property.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Details

original

protected String original

Describes the original sequence in annotations that describe natural or artifical sequence variations.

variation

protected List<String> variation

Describes the variant sequence in annotations that describe natural or artifical sequence variations.

location

protected LocationType location

Describes the sequence coordinates of the annotation.

ligand

protected LigandType ligand

Describes the chemical entity that is bound in annotations that describe binding sites.

ligandPart

protected LigandPartType ligandPart

Describes the specific part of a molecule that is bound in annotations that describe binding sites.

type

protected String type

Describes the type of a sequence annotation. Equivalent to the flat file FT feature keys, but using full terms instead of acronyms.

id

protected String id

description

protected String description

evidence

protected List<Integer> evidence

ref

protected String ref

Constructor Details

FeatureType

public FeatureType()

Method Details

getOriginal

public String getOriginal()

Describes the original sequence in annotations that describe natural or artifical sequence variations.

Returns:

possible object is String

setOriginal

public void setOriginal(String value)

Sets the value of the original property.

Parameters:

value - allowed object is String

See Also:

• getOriginal()

getVariation

public List<String> getVariation()

Describes the variant sequence in annotations that describe natural or artifical sequence variations. Gets the value of the variation property.

This accessor method returns a reference to the live list, not a snapshot. Therefore any modification you make to the returned list will be present inside the JAXB object. This is why there is not a set method for the variation property.

For example, to add a new item, do as follows:

 getVariation().add(newItem);
 

Objects of the following type(s) are allowed in the list String

Returns:

The value of the variation property.

getLocation

public LocationType getLocation()

Describes the sequence coordinates of the annotation.

Returns:

possible object is LocationType

setLocation

public void setLocation(LocationType value)

Sets the value of the location property.

Parameters:

value - allowed object is LocationType

See Also:

• getLocation()

getLigand

public LigandType getLigand()

Describes the chemical entity that is bound in annotations that describe binding sites.

Returns:

possible object is LigandType

setLigand

public void setLigand(LigandType value)

Sets the value of the ligand property.

Parameters:

value - allowed object is LigandType

See Also:

• getLigand()

getLigandPart

public LigandPartType getLigandPart()

Describes the specific part of a molecule that is bound in annotations that describe binding sites.

Returns:

possible object is LigandPartType

setLigandPart

public void setLigandPart(LigandPartType value)

Sets the value of the ligandPart property.

Parameters:

value - allowed object is LigandPartType

See Also:

• getLigandPart()

getType

public String getType()

Describes the type of a sequence annotation. Equivalent to the flat file FT feature keys, but using full terms instead of acronyms.

Returns:

possible object is String

setType

public void setType(String value)

Sets the value of the type property.

Parameters:

value - allowed object is String

See Also:

• getType()

getId

public String getId()

Gets the value of the id property.

Returns:

possible object is String

setId

public void setId(String value)

Sets the value of the id property.

Parameters:

value - allowed object is String

getDescription

public String getDescription()

Gets the value of the description property.

Returns:

possible object is String

setDescription

public void setDescription(String value)

Sets the value of the description property.

Parameters:

value - allowed object is String

getEvidence

public List<Integer> getEvidence()

Gets the value of the evidence property.

This accessor method returns a reference to the live list, not a snapshot. Therefore any modification you make to the returned list will be present inside the JAXB object. This is why there is not a set method for the evidence property.

For example, to add a new item, do as follows:

 getEvidence().add(newItem);
 

Objects of the following type(s) are allowed in the list Integer

Returns:

The value of the evidence property.

getRef

public String getRef()

Gets the value of the ref property.

Returns:

possible object is String

setRef

public void setRef(String value)

Sets the value of the ref property.

Parameters:

value - allowed object is String