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JAL-2145 documentation of getWidth()
[jalview.git]
/
src
/
jalview
/
io
/
gff
/
SequenceOntologyI.java
diff --git
a/src/jalview/io/gff/SequenceOntologyI.java
b/src/jalview/io/gff/SequenceOntologyI.java
index
8128177
..
c7a5baa
100644
(file)
--- a/
src/jalview/io/gff/SequenceOntologyI.java
+++ b/
src/jalview/io/gff/SequenceOntologyI.java
@@
-7,10
+7,13
@@
public interface SequenceOntologyI
/*
* selected commonly used values for quick reference
*/
/*
* selected commonly used values for quick reference
*/
+ // SO:0000104
public static final String POLYPEPTIDE = "polypeptide";
public static final String POLYPEPTIDE = "polypeptide";
+ // SO:0000349
public static final String PROTEIN_MATCH = "protein_match";
public static final String PROTEIN_MATCH = "protein_match";
+ // SO:0000347
public static final String NUCLEOTIDE_MATCH = "nucleotide_match";
// SO:0000316
public static final String NUCLEOTIDE_MATCH = "nucleotide_match";
// SO:0000316
@@
-25,6
+28,9
@@
public interface SequenceOntologyI
// SO:0000673
public static final String TRANSCRIPT = "transcript";
// SO:0000673
public static final String TRANSCRIPT = "transcript";
+ // SO:0001621 isA sequence_variant but used in Ensembl as a transcript
+ public static final String NMD_TRANSCRIPT_VARIANT = "NMD_transcript_variant";
+
// SO:0000704
public static final String GENE = "gene";
// SO:0000704
public static final String GENE = "gene";