public class Intron extends NucleicAcid
BioSequenceImpl.SeqFilterReaderGAP_PATTERN| Modifier and Type | Method and Description |
|---|---|
String |
getAcceptorSpliceSite() |
String |
getDonorSpliceSite() |
GenomicLocation |
getGenomicLocaiton() |
Intron |
setAcceptorSpliceSite(CharSequence inValue) |
Intron |
setDonorSpliceSite(CharSequence inValue) |
Intron |
setGenomicLocaiton(GenomicLocation inValue) |
Intron |
setSequence(String inValue) |
XMLNode |
toXMLNode() |
clone, compareTo, getComplementSequence, getComplementSequenceReader, getComplementSequenceStream, getReverseComplementSequence, getReverseComplementSequenceReader, getReverseComplementSequenceStream, getReverseSequence, getReverseSequenceReader, getReverseSequenceStream, getSeqQualityScores, getType, setDescription, setID, setNCBITaxon, setSeqQualityScores, setSequenceaddDbXref, addFeature, addKeyword, addKeywords, addKeywords, addParseException, addReference, clearDbXrefs, clearFeatures, clearKeywords, clearParseExceptions, clearReferences, getClone, getDbXrefs, getFeatures, getFeatures, getKeywords, getMolType, getNCBITaxon, getParseExceptions, getReferences, getRevisionDate, getSeqRepositoryDivision, getSeqTopology, setClone, setMolType, setReferences, setRevisionDate, setSeqRepositoryDivision, setSeqTopologyclearCalculatedProperties, clearElementalCompositionAndCalculatedProperties, containsGaps, countGaps, equals, getAverageMass, getChemicalFormula, getChemicalFormulaWithSubscripts, getComposition, getDescription, getElementalComposition, getID, getMD5Checksum, getMonoisotopicMass, getNumGaps, getOrganicAverageMass, getResidueComposition, getSequence, getSequenceReader, getSequenceStream, getSHA1Checksum, getSubSequence, getSubSequenceReader, getTerminiComposition, getTotalGapLength, getXLinkComposition, length, recalculateElementalComposition, residueAt, setCompressionThreshold, setNumGaps, setResidueAt, setSequence, setTotalGapLength, toStringadd, add, addAtom, addAtoms, addAtoms, addAtoms, addElementalComposition, addElementalComposition, addElementalComposition, addKa, addKa, calculateMassFromElementalComposition, clearAttributes, clearElementalComposition, formatMassString, getAtoms, getAttribute, getAttributeNames, getKas, getLastAtom, getPhysicalProperty, hasAttribute, hasAttributes, hashCode, isLocked, lock, massesAreUserSet, name, remove, remove, removeAttribute, setAttribute, setAverageMass, setChemicalFormula, setElementalComposition, setMonoisotopicMass, setName, setOrganicAverageMass, setPhysicalPropertyfinalize, getClass, notify, notifyAll, wait, wait, waithadParseExceptionsgetAttribute, getAttributeNames, getDescription, getID, getMD5Checksum, getSequence, getSequenceReader, getSequenceStream, getSHA1Checksum, getSubSequence, getSubSequenceReader, hasAttribute, instantiate, length, removeAttribute, residueAt, setAttribute, setSequencegetAverageMass, getChemicalFormula, getElementalComposition, getMonoisotopicMass, getOrganicAverageMasspublic XMLNode toXMLNode()
toXMLNode in interface BioSequencetoXMLNode in interface HfgXMLSerializabletoXMLNode in class BioSequencePlusImplpublic Intron setGenomicLocaiton(GenomicLocation inValue)
public GenomicLocation getGenomicLocaiton()
public Intron setDonorSpliceSite(CharSequence inValue)
public String getDonorSpliceSite()
public Intron setAcceptorSpliceSite(CharSequence inValue)
public String getAcceptorSpliceSite()
public Intron setSequence(String inValue)