Additional file 2.

CD-epitopes of γ-gliadin transcripts of T. aestivum in their natural context. Alignments of the deduced aminoacid sequences of T.aestivum γ-gliadin transcript contigs (717 transcripts from the Genbank NCBI) spanning a part of the first repetitive domain and a part of the γ-gliadin sequence. CD T-cell epitopes are depicted in bold: γ-I (PQQSFPQQQ), γ-III (QQPQQPYPQ), γ-IV (SQPQQQFPQ), γ-VI (QQPFPQQPQ), γ-VIIa (PQPQQQFPQ), γ-VIIb (QQPQQPFPQ), Glia-γ2a (FPQQPQQPF), 26-mer FLQPQQPFPQQPQQPYPQQPQQPFPQ. Gli-A: T.aestivum γ-gliadin transcripts expressed from locus Gli-A1, Neighbor Joining topology group 6 (N = 140 transcripts) and 7 (N = 38 transcripts). Gli-B: T.aestivum γ-gliadin transcripts expressed from locus Gli-B1, Neighbor Joining topology group 3 (N = 41 transcripts), 5 (N = 125 transcripts) and 8 (N = 19 transcripts). Gli-D: T.aestivum γ-gliadin transcripts expressed from locus Gli-D1, Neighbor Joining topology group 9 (N = 293 transcripts) and 10 (N = 61 transcripts). Alignment gaps are indicated with dashes (−). Shorter sequences, not connected to domain I are marked with #. Glutamine residues that are a primary targets for the enzyme tissue transglutaminase are underlined (

    Q
) in QxP target sites whereas moderate target sites are depicted in italics (Q) [13,14]. Variants of DQ2-γ-I are indicated. Cleavage sites: In black, trypsin; in grey with white letters, chymotrypsin-high specificity; in grey with black letters, chymotrypsin-low specificity; cleavage occurs at the right side (C-terminal direction) of the marked amino acid.

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Salentijn et al. BMC Genomics 2012 13:277   doi:10.1186/1471-2164-13-277