Genome

Sus scrofa (pig) pig Lineage: Eukaryota[15557]; Metazoa[7782]; Chordata[3579]; Craniata[3544]; Vertebrata[3544]; Euteleostomi[3500]; Mammalia[873]; Eutheria[699]; Laurasiatheria[340]; Artiodactyla[152]; Suina[4]; Suidae[3]; Sus[2]; Sus scrofa[1]

The pig (Sus scrofa) is a member of the artiodactyls, or cloven-hoofed mammals, which are an evolutionary clade distinct from the primates and rodents. Pigs exist in both feral and domesticated populations that have distinct phenotypes and karyotypes. The haploid genome of the domesticated pig is estimated to be 2800 Mb. The diploid genome is More...organized in 18 pairs of autosomes and two sex chromosomes.Sus scrofa is an important model organism for health research due to parallels with humans. Swine are omnivores and their digestive physiology is similar to humans. Similarities between humans and pigs also exist in renal function, vascular structure, and respiratory rates. Pigs are used as model organism in many areas of medical research including obesity, cardiovascular disease, endocrinology, alcoholism, diabetes, nephropathy, and organ transplantation. Pigs are also agriculturally important, as pork is a leading source of protein worldwide. Less...

Summary Sequence data:  genome assemblies: 34; sequence reads: 62  (See  Genome Assembly and Annotation report) Statistics:  median total length (Mb): 2461.98  median protein count: 63577  median GC%: 41.7 NCBI Annotation Release:  106 Publications (limited to 20 most recent records) The de novo assembly of a European wild boar genome revealed unique patterns of chromosomal structural variations and segmental duplications. Chen J, et al. Anim Genet 2022 Jun The Meishan pig genome reveals structural variation-mediated gene expression and phenotypic divergence underlying Asian pig domestication. Zhou R, et al. Mol Ecol Resour 2021 Aug The genome of the naturally evolved obesity-prone Ossabaw miniature pig. Zhang Y, et al. iScience 2021 Sep 24 An improved pig reference genome sequence to enable pig genetics and genomics research. Warr A, et al. Gigascience 2020 Jun 1 Development and Genome Sequencing of a Laboratory-Inbred Miniature Pig Facilitates Study of Human Diabetic Disease. Zhang L, et al. iScience 2019 Sep 27 Genomic analyses identify distinct patterns of selection in domesticated pigs and Tibetan wild boars. Li M, et al. Nat Genet 2013 Dec Analyses of pig genomes provide insight into porcine demography and evolution. Groenen MA, et al. Nature 2012 Nov 15 The sequence and analysis of a Chinese pig genome. Fang X, et al. Gigascience 2012 Nov 15 PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Uenishi H, et al. Nucleic Acids Res 2007 Jan Pigs in sequence space: a 0.66X coverage pig genome survey based on shotgun sequencing. Wernersson R, et al. BMC Genomics 2005 May 10 PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res 2004 Jan 1 Complete nucleotide sequence of pig (Sus scrofa) mitochondrial genome and dating evolutionary divergence within Artiodactyla. Lin CS, et al. Gene 1999 Aug 5 More...  Representative (genome information for reference and representative genomes) Reference genome:   Sus scrofa Sscrofa11.1 Submitter: The Swine Genome Sequencing Consortium (SGSC) Loc Type Name RefSeq INSDC Size (Mb) GC% Protein rRNA tRNA Other RNA Gene Pseudogene Chr 1 NC_010443.5 CM000812.5 274.33 40.2 5,392 - 21 1,255 2,423 260 Chr 2 NC_010444.4 CM000813.5 151.94 42.5 5,641 - 29 988 2,683 257 Chr 3 NC_010445.4 CM000814.5 132.85 44.2 4,054 - 36 941 1,805 109 Chr 4 NC_010446.5 CM000815.5 130.91 41.6 3,628 - 70 868 1,650 104 Chr 5 NC_010447.5 CM000816.5 104.53 42.2 3,219 - 12 653 1,458 103 Chr 6 NC_010448.4 CM000817.5 170.84 44.7 6,262 - 16 1,282 2,724 167 Chr 7 NC_010449.5 CM000818.5 121.84 43.1 3,720 - 143 889 1,978 133 Chr 8 NC_010450.4 CM000819.5 138.97 39.5 2,216 - 2 644 1,096 109 Chr 9 NC_010451.4 CM000820.5 139.51 41.2 3,659 - 8 893 1,715 169 Chr 10 NC_010452.4 CM000821.5 69.36 42.7 1,455 - 5 428 664 54 Chr 11 NC_010453.5 CM000822.5 79.17 40.6 1,156 - 5 406 559 43 Chr 12 NC_010454.4 CM000823.5 61.6 47.7 3,151 - 44 708 1,468 58 Chr 13 NC_010455.5 CM000824.5 208.34 39.9 4,724 - 4 918 1,841 200 Chr 14 NC_010456.5 CM000825.5 141.76 43.2 4,088 - 11 811 1,667 132 Chr 15 NC_010457.5 CM000826.5 140.41 39.9 2,727 - 7 561 1,106 115 Chr 16 NC_010458.4 CM000827.5 79.94 40.3 940 - 5 390 588 50 Chr 17 NC_010459.5 CM000828.5 63.49 44.7 1,823 - 5 459 821 46 Chr 18 NC_010460.4 CM000829.5 55.98 43.1 1,368 - 17 400 659 41 Chr X NC_010461.5 CM000830.5 125.94 40.4 2,482 - 8 523 1,172 170 Chr Y NC_010462.3 LT634572.1 43.55 47.5 118 - - 57 147 45 MT NC_000845.1 - 0.02 39.5 13 2 22 - 37 - Un - . - 66.63 43.3 1,741 2 62 446 2,127 719 Chromosomes Click on chromosome name to open Genome Data Viewer External Resources Breeds of Livestock - Swine DFCI Pig Gene Index National Swine Registry National Swine Resource and Research Center (NSRRC) Online Mendelian Inheritance in Animals (OMIA) Porcine Immunology and Nutrition (PIN) Database Rare Breeds Survival Trust The Swine Genome Sequencing Consortium Porcine Genome Sequencing and Mapping - Sanger Institute The Sino-Danish Pig Genome Project NAGRP Pig Genome Coordination Program Pigbase ArkDB - Pig Pig Genome Mapping, Roslin Institute Porcine Sequencing White Paper NISC Comparative Vertebrate Sequencing PigEST - University of Copenhagen Pig Expression Data Explorer (PEDE) PigQTLdb USDA/MARC Linkage Map INRA Cytogenetic Map INRA/UM Radiation Hybrid Map