C. Elegans SNP Information
Exelixis has, as part of the C. elegans mapping
and cloning effort, confirmed 1,099 SNPs that are
evenly spaced (one every 91 +/- 56 kb) throughout
the genomes of the Bristol N2 and CB4856 (Hawaiian)
strains. Exelixis has further identified 8,198 putative
new SNPs providing an even coverage of the complete
worm genome.
These SNPs are a subset of the combined number of
potential SNPs identified through in-house projects
and through the efforts of the Genome Sequencing center
at the Washington University School of Medicine. Exelixis
has successfully used these genome-wide SNP markers
to map numerous mutants.
Confirmed SNPs are listed by location along each of
the six C. elegans chromosomes in the links
below. Potential SNPs spaced 1 every 100 KB were chosen
from public and in-house data. In order to confirm
these SNPs, PCR primers were designed around the predicted
SNPs that generated PCR amplicons ranging in size from
100 to 300 bp. PCR products were generated from N2
and CB4856 genomic DNA. The presence of the predicted
SNP was determined either by sequencing the PCR products,
using the PCR primers as sequencing primers, or by
SNP assay. Primer sequences used for PCR amplification
of the SNP and template directed incorporation of the
polymorphic base are given for each marker.
To obtain more information about these genomic markers,
see our 2002 Genome Research publication by visiting
the following link: 2002
Genome Research publication.
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To download details of the genomic markers, follow
the links below.
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