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Development of an in silico coding gene SNP map in pigs
Author(s) -
Li X. P.,
Hu Z. L.,
Moon S. J.,
Do K. T.,
Ha Y. K.,
Kim H.,
Byun M. J.,
Choi B. H.,
Rothschild M. F.,
Reecy J. M.,
Kim K. S.
Publication year - 2008
Publication title -
animal genetics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.756
H-Index - 81
eISSN - 1365-2052
pISSN - 0268-9146
DOI - 10.1111/j.1365-2052.2008.01727.x
Subject(s) - biology , contig , gene , snp , genetics , single nucleotide polymorphism , genome , quantitative trait locus , radiation hybrid mapping , homology (biology) , coding region , computational biology , reference genome , gene mapping , chromosome , genotype
A total of 5450 sequences obtained from the NCBI pig SNP database were consolidated into 465 unique sequences (189 singleton sequences and 276 contigs). These 465 sequences contained 1787 putative SNPs and had strong sequence homology to 433 human protein-coding genes based on blast analyses. These genes were assigned to the pig QTL maps (http://www.animalgenome.org/QTLdb/pig.html) via the human and pig comparative maps established by a pig radiation hybrid (RH) map. The SNP information characterized from this study provides a useful functional gene variation resource to facilitate QTL data mining in the pig genome.