PMC

Distribution of EST reads in contigs. Contigs are ordered by the numbers of expressed sequence tags (ESTs) they contained. There were 6740 contigs carrying two ESTs and 1084 contigs carrying more than 30 ESTs. There were 15,432 contigs consisting of fewer than 20 ESTs.

Classification of ESTs according to Gene Ontology. Proportions of expressed sequence tags (EST) classified according to Gene Ontology terms under the root namespaces (molecular function (A), cellular component (B), and biological process (C)) are indicated for each cDNA library. Classification according to Gene Ontology was conducted by using the similarity of the EST assemblies to human genes and the correspondence between genes and the Gene Ontology terms provided in NCBI Gene ( ftp://ftp.ncbi.nih.gov/gene/DATA/; []). ESTs classified under more than one term in a single namespace are counted redundantly under the respective terms. ESTs not classified under any terms are omitted from this figure.

Correspondence of EST assemblies and cDNA clones to locations on the draft sequence of the pig genome and Gene Ontology. Shown are the numbers of loci that are located on each pig chromosome in the draft sequence of the pig genome (Sscrofa10.2) and that correspond to the EST assemblies (A) and pig cDNA clones (B) sequenced in this study. Orientations of loci are shown by closed bars (pter to qter) and open bars (qter to pter). EST assemblies (C) and pig cDNA clones that were completely sequenced (D) were classified according to the Gene Ontology terms shown under each root namespace (i.e., molecular function, cellular component, and biological process) by using the ontology file as at 31 October 2011. Classification according to Gene Ontology was conducted by using the similarity of cDNA clones to the mRNA sequences of human genes in the NCBI RefSeq (release 49) and the correspondence between genes and Gene Ontology terms provided in NCBI Gene ( ftp://ftp.ncbi.nih.gov/gene/DATA/ as at 2 November 2011; []). The numbers of EST assemblies classified into the three namespaces (molecular function, cellular component, and biological process) were 56,703, 59,098, and 54,610, respectively. The numbers of cDNA clones classified into the three namespaces were 21,332, 22,306, and 20,538, respectively. Assemblies and clones classified under more than one term in a single namespace are counted redundantly under the respective terms. Terms including fewer than 1000 assemblies and clones are indicated as “Others” in the aggregates.