uk.ac.roslin.ensembl.datasourceaware.core

Class DAExon

java.lang.Object

uk.ac.roslin.ensembl.datasourceaware.DAObject

uk.ac.roslin.ensembl.datasourceaware.core.DACoreObject

uk.ac.roslin.ensembl.datasourceaware.core.DAFeature

uk.ac.roslin.ensembl.datasourceaware.core.DAExon

All Implemented Interfaces:

Serializable, CoreObject, Exon, Feature, IdentifiableObject, MappableObject, StableID

public class DAExon
extends DAFeature
implements Exon

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class uk.ac.roslin.ensembl.datasourceaware.core.DAFeature

DAFeature.Status

Nested classes/interfaces inherited from class uk.ac.roslin.ensembl.datasourceaware.DAObject

DAObject.DAComparator

Nested classes/interfaces inherited from interface uk.ac.roslin.ensembl.model.core.Exon

Exon.Phase

Field Summary

Fields inherited from class uk.ac.roslin.ensembl.datasourceaware.core.DAFeature

current, description, displayName, displayXRef, initialized, length, mappedObjectTypes, mappings, objectTypeMappings, status, thisSequence

Fields inherited from class uk.ac.roslin.ensembl.datasourceaware.core.DACoreObject

comparaFactories, creationDate, modificationDate, species, stableID, version

Fields inherited from class uk.ac.roslin.ensembl.datasourceaware.DAObject

daComparator, daoFactory, dbVersion, id, registry, schemaVersion

Constructor Summary

Constructors

Constructor and Description
DAExon()
DAExon(DAOCoreFactory factory)

Method Summary

Methods

Modifier and Type	Method and Description
String	getDisplayName()
int	getEndPhase()
int	getPhase()
Integer	getRank()
DATranscript	getTranscript()
Integer	getTranscriptID()
ObjectType	getType()
Boolean	isConstitutive()
void	setConstitutive(Boolean constitutive)
void	setEndPhase(int endPhase)
void	setPhase(int phase)
void	setRank(Integer rank)
void	setTranscript(Transcript transcript)
void	setTranscriptID(Integer transcriptID)

Methods inherited from class uk.ac.roslin.ensembl.datasourceaware.core.DAFeature

addMappedObjectType, addMapping, clearAllMappings, convertChromosomePositionToFeature, convertToTargetCoordinate, convertToTargetPosition, getAnnotationLevelMappings, getBuildLevelMappings, getChromosomeMapping, getChromosomeMapping, getChromosomeMappings, getCreationDate, getDescription, getFlankingTargetSequenceAsString, getId, getLength, getLoadedMappings, getLoadedMappings, getModificationDate, getPaddedFlankingTargetSequenceAsString, getRNASequence, getRNASequenceAsString, getRNASequenceAsString, getSequence, getSequenceAsString, getSequenceAsString, getStatus, getTargetSequence, getTopLevelMappings, getTopLevelTargetCoordinates, getTopLevelTargetSequence, getVersion, inititializeTopLevel, isCurrent, isInitialized, isObjectTypeMapped, setCurrent, setDescription, setDisplayName, setInitialized, setLength, setStatus

Methods inherited from class uk.ac.roslin.ensembl.datasourceaware.core.DACoreObject

getAssembly, getComparaDivision, getComparaFactory, getComparaFactory, getDaoFactory, getSpecies, getStableID, setCreationDate, setDBVersion, setModificationDate, setSpecies, setStableID, setVersion

Methods inherited from class uk.ac.roslin.ensembl.datasourceaware.DAObject

getDBVersion, getHashID, getRegistry, getSchemaVersion, isLazyloadAllowed, setDaoFactory, setId, setLazyloadAllowed, setRegistry

Methods inherited from class java.lang.Object

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

Methods inherited from interface uk.ac.roslin.ensembl.model.core.Feature

addMappedObjectType, getChromosomeMapping, getChromosomeMapping, getChromosomeMappings, isCurrent, isObjectTypeMapped

Methods inherited from interface uk.ac.roslin.ensembl.model.MappableObject

addMapping, clearAllMappings, getLoadedMappings, getLoadedMappings

Methods inherited from interface uk.ac.roslin.ensembl.model.IdentifiableObject

getDBVersion, getHashID, getId, getSchemaVersion, setId

Constructor Detail

DAExon

public DAExon()

DAExon

public DAExon(DAOCoreFactory factory)

Method Detail

getType

public ObjectType getType()

Specified by:

getType in interface IdentifiableObject

getTranscript

public DATranscript getTranscript()

setTranscript

public void setTranscript(Transcript transcript)

getTranscriptID

public Integer getTranscriptID()

setTranscriptID

public void setTranscriptID(Integer transcriptID)

getDisplayName

public String getDisplayName()

Overrides:

getDisplayName in class DAFeature

getPhase

public int getPhase()

Specified by:

getPhase in interface Exon

setPhase

public void setPhase(int phase)

getEndPhase

public int getEndPhase()

setEndPhase

public void setEndPhase(int endPhase)

isConstitutive

public Boolean isConstitutive()

Specified by:

isConstitutive in interface Exon

setConstitutive

public void setConstitutive(Boolean constitutive)

getRank

public Integer getRank()

setRank

public void setRank(Integer rank)