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Pig Genome Information - Pig Sscrofa11.1 Assembly


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 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.

Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Cetartiodactyla; Suina; Suidae; Sus; Sus scrofa


Summary

AssemblyPig Sscrofa11.1 Assembly
GCF_000003025.6
Base Pairs2,478,444,698
Total Sequence Length (bp)2,501,912,388
Total Assembly Gap Length (bp)
Gaps Between Scaffolds (bp)93
Number of Scaffolds706
Scaffold N50 (bp)88,231,837
Scaffold L509
Number of Contigs1,118
Contig N50 (bp)48,231,277
Contig L5015
No. of NCBI chromosome records21

Gene Counts

Total Genes28139
Protein Coding genes19603
Non coding RNA5735
tRNA448
Pseudogenes2366
Gene transcripts75517
Genes without orthologs10855
Genes with Orthologs17284

#Pig Genes with Orthologs in...

Human17282
Mouse16767
Rat16679
Chinchilla15685
Bonobo16342
Dog16627
Squirrel15872

Other

Exons278141
Karyotype
 
Chromosomes
,
ChromosomeSequence LengthGap LengthGap CountContig CountRefSeq Id
1 274330532 400 4 1 NC_010443.5
2 151935994 135324 6 3 NC_010444.4
3 132848913 200400 8 5 NC_010445.4
4 130910915 40246 3 1 NC_010446.5
5 104526007 150900 12 4 NC_010447.5
6 170843587 424126 10 4 NC_010448.4
7 121844099 100900 11 3 NC_010449.5
8 138966237 100300 5 3 NC_010450.4
9 139512083 200 2 1 NC_010451.4
10 69359453 102120 3 2 NC_010452.4
11 79169978 50300 4 2 NC_010453.5
12 61602749 102621 3 1 NC_010454.4
13 208334590 100023 10 1 NC_010455.5
14 141755446 200 2 1 NC_010456.5
15 140412725 50200 3 2 NC_010457.5
16 79944280 - - 1 NC_010458.4
17 63494081 150400 7 4 NC_010459.5
18 55982971 - - 1 NC_010460.4
X 125939595 160694 10 3 NC_010461.5
Y 43547828 27979487 392 70 NC_010462.3
MT 16613 - - 1 NC_000845.1
References

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.