title: [Manual annotation of the pig whole genomic sequence using Otterlace software].
abstract: In November 2009, scientists from the US, UK, and other countries announced the complete genome sequence draft of the domestic pig. With the release of improved versions of the pig genome assembly and the increase of correctly assembled sequenced fragments over the past two years, it is particularly urgent to have the pig genes annotated at whole-genome level. This article is aimed at introducing an excellent manual annotation tool, Otterlace software, developed by Sanger institute. We used CFL1 (Cofilin 1) gene as an example to expound the usage of the three main components of Otterlace, Zmap, Blixem, and Dotter tools, and developed a practical procedure for manual annotations. We have analyzed 243 immune-related genes, among which 180 genes have been completely or partially annotated, offering novel information to the porcine functional genomics.
authors.affiliation: Key Lab of Agricultural Animal Genetics, Breeding and Reproduction of Ministry of Education & Key Laboratory of Swine Genetics and Breeding of Ministry of Agriculture, Huazhong Agricultural University, Wuhan 430070, China. bailihongchen@163.com
authors.forename: Jie
authors.initials: J
authors.lastname: Zhang
authors.forename: Zong-Min
authors.initials: ZM
authors.lastname: Shang
authors.forename: Jian-Hua
authors.initials: JH
authors.lastname: Cao
authors.forename: Bin
authors.initials: B
authors.lastname: Fan
authors.forename: Shu-Hong
authors.initials: SH
authors.lastname: Zhao
mesh_terms: D000818:Animals; D001483:Base Sequence; D016678:Genome; D008969:Molecular Sequence Data; D012984:Software; D013552:Swine / Q000235:genetics*