Merge pull request #271 from alliance-genome/SCRUM-4554

SCRUM-2554 Add transcript_id to Transcript
alliance-genome · Nov 4, 2024 · 1ad354b · 1ad354b
2 parents 7e4ca7c + 4578f59
commit 1ad354b
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diff --git a/generated/jsonschema/allianceModel.schema.json b/generated/jsonschema/allianceModel.schema.json
@@ -23482,6 +23482,10 @@
                     },
                     "type": "array"
                 },
+                "transcript_id": {
+                    "description": "The transcript identifier used by the Ensembl VEP to identify the transcript and generate HGVSc identifiers.  This corresponds to the transcript_id attribute in column 9 of transcript entries in the GFF files.",
+                    "type": "string"
+                },
                 "transcript_type": {
                     "description": "SOTerm describing transcript type",
                     "type": "string"
@@ -23630,6 +23634,10 @@
                     "description": "Curie of the NCBITaxonTerm representing the taxon from which the biological entity derives",
                     "type": "string"
                 },
+                "transcript_id": {
+                    "description": "The transcript identifier used by the Ensembl VEP to identify the transcript and generate HGVSc identifiers.  This corresponds to the transcript_id attribute in column 9 of transcript entries in the GFF files.",
+                    "type": "string"
+                },
                 "transcript_type_curie": {
                     "description": "Curie of SOTerm describing transcript type",
                     "type": "string"

diff --git a/model/schema/core.yaml b/model/schema/core.yaml
@@ -150,6 +150,7 @@ classes:
       the result of a DNA-dependent RNA polymerase gene transcription event
     slots:
       - name
+      - transcript_id
       - transcript_type
       - transcript_genomic_location_associations
       - transcript_gene_association
@@ -170,6 +171,7 @@ classes:
       Ingest class for transcripts
     slots:
       - name
+      - transcript_id
       - transcript_type_curie
 
   Exon:
@@ -1255,6 +1257,14 @@ slots:
       The model organism database (MOD) internal identifier for the object
     range: string
 
+  transcript_id:
+    description: >-
+      The transcript identifier used by the Ensembl VEP to identify the
+      transcript and generate HGVSc identifiers.  This corresponds to
+      the transcript_id attribute in column 9 of transcript entries in
+      the GFF files.
+    range: string
+
   first_name:
     description: first name of a person
     range: string

diff --git a/test/data/transcript_test.json b/test/data/transcript_test.json
@@ -3,6 +3,7 @@
   "transcript_ingest_set": [
     {
       "primary_external_id": "WB:M05B5.5a.1",
+      "transcript_id": "WB:M05B5.5a.1",
       "taxon_curie": "NCBITaxon:6239",
       "transcript_type_curie": "SO:0000010",
       "created_by_curie": "WB:WBPerson2987",