Table 1. Variations in the FAM190A coding region transcripts.
Deleted exons | Consequence | Predicted non-natural peptide sequence at the fusion joint* |
---|---|---|
4-5 | Not in frame | SSSSKMNSL~ESFPEINKGRX † |
6 | Not in frame | PEFPEPSK~QVQTX |
7 | In frame | LKMKRVLQE~DIMKDECSM |
7-8 | In frame | LKMKRVLQE~GKVRHLQKA‡ |
7-8-9 | In frame | LKMKRVLQE~GLNLKRLET |
7-8-9-10 | In frame | LKMKRVLQE~ATYRNRIVS |
7 and 9 | In frame | LKMKRVLQE~DIMKDECSMLKLQL KEKDELISQLQEEL~GLNLKRLET§,∥ |
8 | In frame | LTEEPVPFK~GKVRHLQKA |
8-9 | In frame | LTEEPVPFK~GLNLKRLET†† |
8-9-10 | In frame | LTEEPVPFK~ATYRNRIVS |
9 | In frame | LISQLQEEL~GLNLKRLET§ |
9-10 | In frame | LISQLQEEL~ATYRNRIVS** |
10 | In frame | TQTELLCYD~ATYRNRIVS |
Before the ~ sign are listed the last nine aminoacidic residues of the exon preceding the deletion. After the ~ sign are listed the first nine aminoacidic residues of the exon following the deletion. An underline indicates the aminoacidic residues that would be created due to a frame-shift. These two not-in-frame deletions would create a truncated predicted polypeptide. †X, stop codon. For HLA-A*0205, the cognate ligand structure - q - g-V- -L matches del7-8‡ and the structure -L- - -L- -L matches the joints produced by del7 and 9§ and del9§. For HLA-A3, the ligand structure -V- - - - I-K- matches del7 and 9∥, the structure -L- - -L- -Y- matches del9-10**, and the structure - -F- -L- -K- matches del8-9†† [26].