X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2Fgff%2FSequenceOntologyI.java;h=307e1d14910939ca8fe7ef60af4afd17993a2961;hb=6d35ae6c809d36b2e2fa984436134dbff712a377;hp=c7a5baaffae9c7f470b235211e423018b572f957;hpb=e96f5e8ce137e879dd4b4f37fb5c4d134e2778e2;p=jalview.git

diff --git a/src/jalview/io/gff/SequenceOntologyI.java b/src/jalview/io/gff/SequenceOntologyI.java
index c7a5baa..307e1d1 100644
--- a/src/jalview/io/gff/SequenceOntologyI.java
+++ b/src/jalview/io/gff/SequenceOntologyI.java
@@ -1,3 +1,23 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
 package jalview.io.gff;
 
 import java.util.List;
@@ -22,6 +42,15 @@ public interface SequenceOntologyI
   // SO:0001060
   public static final String SEQUENCE_VARIANT = "sequence_variant";
 
+  // SO:0001819
+  public static final String SYNONYMOUS_VARIANT = "synonymous_variant";
+
+  // SO:0001992
+  public static final String NONSYNONYMOUS_VARIANT = "nonsynonymous_variant";
+
+  // SO:0001587
+  public static final String STOP_GAINED = "stop_gained";
+
   // SO:0000147
   public static final String EXON = "exon";