Known Snps For C57Bl/6 And Cast/Eij
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9.3 years ago
dfernan ▴ 710

Hi,

I'd like to find ALL the SNPs and INDELS of CAST/EiJ with respect to C57BL/6 (I think this is mm10 reference assembly, am i correct?) mouse strain.

I have tried searching in pubmed dbsnp but i did not have much fortune...

Any help?

snp dbsnp • 4.1k views
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9.3 years ago
jts ▴ 240

The mouse genomes project at Sanger has SNP calls for many strains:

http://www.sanger.ac.uk/resources/mouse/genomes/

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Hi, thanks a lot! I found that data as well but my question is, does that data include all the reported SNPs for CAST/EiJ with respect to the latest assembly of C57BL/6?

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There is a very detailed README file on the ftp:

ftp://ftp-mouse.sanger.ac.uk/current_snps/README

It says the reference version is GRCm38 (which is C57BL/6J).

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great thanks! do you know if there are more SNPs databases, or these are all the SNPs out there for CAST/C57? thx again

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9.3 years ago

At http://www.informatics.jax.org/strains_SNPs.shtml from the Jackson Lab you can find SNPs for given strains.

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