Combining next-generation pyrosequencing with microarray for large scale expression analysis in non-model species

BMC Genomics

Table 4 Alignment statistics of 454 unigene transcriptome catalogs and VvGI 6.0 TCs with an oligo

	NN	N	TC
Sequences with oligonucleotide probe designed	17,843	29,393	32,771
Gene loci matches
- Within exons	10,798	14,176	15,552
- Within introns	808	939	775
- 500 bp downstream	373	359	82
VvGI 6.0 matched by sequences mapping to unannotated genome regions	2,159	2,663	2,989
Putative new genes (sequences mapping to unannotated genome only)	1,468	3,709	-
Total number of grape transcripts identified	15,606	21,846	19,398

454 unigene transcriptome catalogs with a designed oligo and VvGI 6.0 TCs with an oligo were aligned to known gene loci, unannotated genomic regions and ESTs. Number of gene loci, ESTs and putative novel genes, identified by all sequences mapping to grape genome in the three different libraries considered (non-normalized (NN), normalized (N), and TCs comprised in VvGI) are given.

ISSN: 1471-2164