Uses of Class
org.snpeff.interval.SpliceSite
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Packages that use SpliceSite Package Description org.snpeff.interval -
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Uses of SpliceSite in org.snpeff.interval
Subclasses of SpliceSite in org.snpeff.interval Modifier and Type Class Description class
SpliceSiteAcceptor
Interval for a splice site acceptor Note: Splice sites donnor are defined as the last 2 bases of an intron Reference: http://en.wikipedia.org/wiki/RNA_splicingclass
SpliceSiteBranch
A (putative) branch site.class
SpliceSiteBranchU12
A (putative) U12 branch site.class
SpliceSiteDonor
Interval for a splice site donnor Note: Splice sites donnor are defined as the first 2 bases of an intron Reference: http://en.wikipedia.org/wiki/RNA_splicingclass
SpliceSiteRegion
Interval for a splice site acceptor From Sequence Ontology: A sequence variant in which a change has occurred within the region of the splice site, either within 1-3 bases of the exon or 3-8 bases of the intron.Methods in org.snpeff.interval that return types with arguments of type SpliceSite Modifier and Type Method Description java.util.ArrayList<SpliceSite>
Exon. getSpliceSites()
java.util.ArrayList<SpliceSite>
Intron. getSpliceSites()
java.util.List<SpliceSite>
Transcript. spliceSites()
Methods in org.snpeff.interval with parameters of type SpliceSite Modifier and Type Method Description void
Exon. add(SpliceSite ss)
Add a splice site to the collectionvoid
Intron. add(SpliceSite ss)
Add a splice site to the collectionvoid
Transcript. add(SpliceSite spliceSite)
Add a SpliceSite
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