Previous change didn't work on negative strand

SACGF · Nov 10, 2021 · b4571a7 · b4571a7
1 parent 2ca3e08
commit b4571a7
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/pyhgvs/models/transcript.py b/pyhgvs/models/transcript.py
@@ -80,7 +80,7 @@ def get_utr5p_size(self):
                 else:
                     position = end - start_codon - 1
                 return cdna_offset + position + cdna_match.get_offset(position)
-            cdna_offset = cdna_match.cdna_end
+            cdna_offset += cdna_match.length
 
         # Couldn't find it
         cdna_matches = []
@@ -110,7 +110,7 @@ def find_stop_codon(self, cds_position):
                     position = stop - stop_pos
                 return cdna_offset + position + cdna_match.get_offset(position)
             else:
-                cdna_offset = cdna_match.cdna_end
+                cdna_offset += cdna_match.length
         raise ValueError('Stop codon is not in any of the exons')
 
     def cdna_to_genomic_coord(self, coord):
@@ -233,7 +233,7 @@ def _exon_genomic_to_cdna_coord(self, genomic_coord):
                     position = cdna_match.tx_position.chrom_stop - genomic_coord
                 offset = cdna_match.get_offset(position, validate=False)
                 return cdna_offset + position + offset + 1
-            cdna_offset = cdna_match.cdna_end
+            cdna_offset += cdna_match.length
 
         raise ValueError(f"Couldn't find {genomic_coord=}!")