add canonical noncoding transcript exon variant filter

broadinstitute · Sep 5, 2023 · 3ab3b02 · 3ab3b02
1 parent 230847b
commit 3ab3b02
Showing 1 changed file with 5 additions and 14 deletions.
diff --git a/ui/shared/utils/constants.js b/ui/shared/utils/constants.js
@@ -909,26 +909,17 @@ const ORDERED_VEP_CONSEQUENCES = [
     value: 'NMD_transcript_variant',
     so: 'SO:0001621',
   },
-  // 2 kinds of 'non_coding_transcript_exon_variant' text due to value change in Ensembl v77
   {
-    description: 'A sequence variant that changes non-coding exon sequence',
-    text: 'Non-coding exon variant',
-    value: 'non_coding_exon_variant',
-    so: 'SO:0001792',
+    description: 'A sequence variant that changes non-coding exon sequence in a canonical transcript for that gene, typically a noncoding gene',
+    text: 'Non-coding transcript exon variant (canonical)',
+    value: 'non_coding_transcript_exon_variant__canonical',
   },
   {
-    description: 'A sequence variant that changes non-coding exon sequence',
-    text: 'Non-coding transcript exon variant',
+    description: 'A sequence variant that changes non-coding exon sequence in any transcript for that gene, often a noncoding version of a protein coding gene',
+    text: 'Non-coding transcript exon variant (all)',
     value: 'non_coding_transcript_exon_variant',
     so: 'SO:0001792',
   },
-  // 2 kinds of 'nc_transcript_variant' text due to value change in Ensembl v77
-  {
-    description: 'A transcript variant of a non coding RNA',
-    text: 'nc transcript variant',
-    value: 'nc_transcript_variant',
-    so: 'SO:0001619',
-  },
   {
     description: 'A transcript variant of a non coding RNA',
     text: 'Non-coding transcript variant',