Analysis of expressed sequence tags from a single wheat cultivar facilitates interpretation of tandem mass spectrometry data and discrimination of gamma gliadin proteins that may play different functional roles in flour

Table 3 Comparison of gamma gliadins encoded by Butte 86 contigs to proteins in NCBI and proteins encoded by contigs from other EST assemblies.

Butte 86 Contig #	# Amino acids	NCBI Accession #¹	Identity	TaGI 10.0 Contig #	Identity	TaGI 11.0 Contig #	Identity	US Wheat Genome Project Contig #	Identity²	HarvEST 1.14 Contig #	Identity²
1	328	[GenBank: AAK84774.1]	326/337	TC234710³	194/197	TC291857³	181/193	18524⁴	nd	14880	328/328
				TC250086	328/328	TC280138	327/328			1901^4,5	nd
				TC250043	326/337
2	327	[GenBank: AAK84779.1]	326/327	TC250310	327/327	TC327998	327/327	18871⁴	nd	4446	327/327
						TC333020³	160/198			14939^3,4	nd
3	302	[GenBank: AAA34272.1]	300/302	TC249992	300/302	TC308951	299/302	18764	299/302	2079	302/302
4	302	[GenBank: ACJ03466.1]	302/302	TC250000	302/302	TC308951	276/302	18752	301/302	14939^3,4	nd
						TC337354	269/302			14945³	212/230
5	358	[GenBank: ACJ03521.1]	342/362	TC233870	357/358	TC357319⁶	357/358	18873⁷	nd	15356	358/358
				TC250310	306/358
6	285	[GenBank: ABO37962]	283/285	TC249991	285/285	TC329976³	254/264	18814	285/285	15101	285/285
						TC332920	265/285
7	291	[GenBank: ACJ03428.1]	290/291	TC232926	291/291	TC296897	290/291	18753	289/291	4448	290/291
										1900⁸	291/291
8	332	[GenBank: AAK84774.1]	317/337	TC250043	317/337	TC280138	313/332	18524⁴	nd	14880	314/332
				TC234710³	194/197	TC281237	318/339	271³	176/176	4604⁹	nd
				TC250086	314/332	TC291857³	183/185			1901^4,5	nd
										47432³	188/188
9³	289	[GenBank: ACJ03517.1]	266/294	TC249996³	204/227	TC293526	283/289	16926	288/289	14942	288/289
				TC250031³	251/255
10	286	[GenBank: AAA34272.1]	284/302	TC249992	284/302	TC308951	283/302	18764	283/302	2079	286/302
						TC337760³	142/180	18842⁴	nd	209⁵	283/286
11³	163	[GenBank: ACJ03465.1]	163/163	TC233421	163/163	TC277980	163/163	16585³	163/163	4328	163/163

¹ accession with highest score in BLASTp search of non-redundant protein sequences using BLOSUM62, no compositional adjustments, no filters, no masks. Database last searched on 5/08/09.
² protein identities that were not determined because consensus sequences of contigs contained frameshifts or stop codons in the reading frame are indicated by nd.
³ partial coding sequence.
⁴ consensus sequence contains frameshift or stop codon in reading frame.
⁵ complement of consensus sequence.
⁶ contig contains a portion of a LMW-GS sequence at 5' end.
⁷ encodes alpha gliadin.
⁸ encodes identical protein to Butte 86 contig, but does not contain any ESTs from Butte 86.
⁹ encodes LMW-glutenin subunit.

ISSN: 1471-2229