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Table 4 Summary of 12947 6-frame translated genome-mapped peptides and 1840 peptide clusters corresponding to annotated gene features categorised by either direct overlap or close proximity (within 200 bp).

From: Deep proteogenomics; high throughput gene validation by multidimensional liquid chromatography and mass spectrometry of proteins from the fungal wheat pathogen Stagonospora nodorum

Match Type

Overlap

Within 200 bp

No match

Total

Peptide-CDS 1

11635

323

989

12947

Peptide cluster-CDS

1520

54

266

1840

  1. 1 CDS features are coding exons (gene sequence from translation start to stop, excluding introns). The number of proximal peptide and peptide cluster matches is greatly reduced in whole gene comparisons relative to CDS matches, indicating significant mis-annotations in EST-supported UTR regions and/or intron regions.