Package org.intermine.model.bio

Interface Gene

All Superinterfaces:

Annotatable, BioEntity, org.intermine.model.FastPathObject, org.intermine.model.InterMineFastPathObject, org.intermine.model.InterMineObject, SequenceFeature

All Known Implementing Classes:

GeneShadow

public interface Gene
extends SequenceFeature

Method Summary

Modifier and Type	Method	Description
void	addcDSs(CDS arg)
void	addExons(Exon arg)
void	addFlankingRegions(GeneFlankingRegion arg)
void	addHomologues(Homologue arg)
void	addIntrons(Intron arg)
void	addProteins(Protein arg)
void	adduTRs(UTR arg)
java.lang.String	getBriefDescription()
java.util.Set<CDS>	getcDSs()
java.lang.String	getDescription()
IntergenicRegion	getDownstreamIntergenicRegion()
java.util.Set<Exon>	getExons()
java.util.Set<GeneFlankingRegion>	getFlankingRegions()
java.util.Set<Homologue>	getHomologues()
java.util.Set<Intron>	getIntrons()
java.util.Set<Protein>	getProteins()
IntergenicRegion	getUpstreamIntergenicRegion()
java.util.Set<UTR>	getuTRs()
org.intermine.model.InterMineObject	proxGetDownstreamIntergenicRegion()
org.intermine.model.InterMineObject	proxGetUpstreamIntergenicRegion()
void	proxyDownstreamIntergenicRegion(org.intermine.objectstore.proxy.ProxyReference downstreamIntergenicRegion)
void	proxyUpstreamIntergenicRegion(org.intermine.objectstore.proxy.ProxyReference upstreamIntergenicRegion)
void	setBriefDescription(java.lang.String briefDescription)
void	setcDSs(java.util.Set<CDS> CDSs)
void	setDescription(java.lang.String description)
void	setDownstreamIntergenicRegion(IntergenicRegion downstreamIntergenicRegion)
void	setExons(java.util.Set<Exon> exons)
void	setFlankingRegions(java.util.Set<GeneFlankingRegion> flankingRegions)
void	setHomologues(java.util.Set<Homologue> homologues)
void	setIntrons(java.util.Set<Intron> introns)
void	setProteins(java.util.Set<Protein> proteins)
void	setUpstreamIntergenicRegion(IntergenicRegion upstreamIntergenicRegion)
void	setuTRs(java.util.Set<UTR> UTRs)

Methods inherited from interface org.intermine.model.bio.Annotatable

addOntologyAnnotations, addPublications, getOntologyAnnotations, getPrimaryIdentifier, getPublications, setOntologyAnnotations, setPrimaryIdentifier, setPublications

Methods inherited from interface org.intermine.model.bio.BioEntity

addCrossReferences, addDataSets, addLocatedFeatures, addLocations, addSynonyms, getCrossReferences, getDataSets, getLocatedFeatures, getLocations, getName, getOrganism, getSecondaryIdentifier, getSymbol, getSynonyms, proxGetOrganism, proxyOrganism, setCrossReferences, setDataSets, setLocatedFeatures, setLocations, setName, setOrganism, setSecondaryIdentifier, setSymbol, setSynonyms

Methods inherited from interface org.intermine.model.FastPathObject

getFieldProxy, getFieldType, getFieldValue, setFieldValue

Methods inherited from interface org.intermine.model.InterMineObject

getElementType, getId, getoBJECT, setId, setoBJECT, setoBJECT

Methods inherited from interface org.intermine.model.bio.SequenceFeature

addChildFeatures, addOverlappingFeatures, getChildFeatures, getChromosome, getChromosomeLocation, getLength, getOverlappingFeatures, getScore, getScoreType, getSequence, getSequenceOntologyTerm, getStrain, proxGetChromosome, proxGetChromosomeLocation, proxGetSequence, proxGetSequenceOntologyTerm, proxGetStrain, proxyChromosome, proxyChromosomeLocation, proxySequence, proxySequenceOntologyTerm, proxyStrain, setChildFeatures, setChromosome, setChromosomeLocation, setLength, setOverlappingFeatures, setScore, setScoreType, setSequence, setSequenceOntologyTerm, setStrain

Method Detail

getBriefDescription

java.lang.String getBriefDescription()

setBriefDescription

void setBriefDescription(java.lang.String briefDescription)

getDescription

java.lang.String getDescription()

setDescription

void setDescription(java.lang.String description)

getUpstreamIntergenicRegion

IntergenicRegion getUpstreamIntergenicRegion()

setUpstreamIntergenicRegion

void setUpstreamIntergenicRegion(IntergenicRegion upstreamIntergenicRegion)

proxyUpstreamIntergenicRegion

void proxyUpstreamIntergenicRegion(org.intermine.objectstore.proxy.ProxyReference upstreamIntergenicRegion)

proxGetUpstreamIntergenicRegion

org.intermine.model.InterMineObject proxGetUpstreamIntergenicRegion()

getDownstreamIntergenicRegion

IntergenicRegion getDownstreamIntergenicRegion()

setDownstreamIntergenicRegion

void setDownstreamIntergenicRegion(IntergenicRegion downstreamIntergenicRegion)

proxyDownstreamIntergenicRegion

void proxyDownstreamIntergenicRegion(org.intermine.objectstore.proxy.ProxyReference downstreamIntergenicRegion)

proxGetDownstreamIntergenicRegion

org.intermine.model.InterMineObject proxGetDownstreamIntergenicRegion()

getFlankingRegions

java.util.Set<GeneFlankingRegion> getFlankingRegions()

setFlankingRegions

void setFlankingRegions(java.util.Set<GeneFlankingRegion> flankingRegions)

addFlankingRegions

void addFlankingRegions(GeneFlankingRegion arg)

getIntrons

java.util.Set<Intron> getIntrons()

setIntrons

void setIntrons(java.util.Set<Intron> introns)

addIntrons

void addIntrons(Intron arg)

getProteins

java.util.Set<Protein> getProteins()

setProteins

void setProteins(java.util.Set<Protein> proteins)

addProteins

void addProteins(Protein arg)

getcDSs

java.util.Set<CDS> getcDSs()

setcDSs

void setcDSs(java.util.Set<CDS> CDSs)

addcDSs

void addcDSs(CDS arg)

getHomologues

java.util.Set<Homologue> getHomologues()

setHomologues

void setHomologues(java.util.Set<Homologue> homologues)

addHomologues

void addHomologues(Homologue arg)

getExons

java.util.Set<Exon> getExons()

setExons

void setExons(java.util.Set<Exon> exons)

addExons

void addExons(Exon arg)

getuTRs

java.util.Set<UTR> getuTRs()

setuTRs

void setuTRs(java.util.Set<UTR> UTRs)

adduTRs

void adduTRs(UTR arg)