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Synonymous Mutations And Their Effect On Splice Site.

Hi To analysis exome sequence data sometimes people exclude synonymous mutation.BUT it might affect on splice sites depend on how far it is from splice sites.

I have a list of synonymous variants.What is the easiest way to analyze these kind of mutations.I mean an on line web page where I upload my variants list and have a batch output.Thanks

exome
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updated by ff.cc.cc ff.cc.cc • written by Omid Omid

Hi. How did you call these synonymous variants? If you used PolyPhen etc., I think it would have told you if the mutation is splice site mutation.

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written by Vikas Bansal Vikas Bansal

1 answer

"Ensembl provides the facility to predict the functional consequences of known and unknown variants using the Variant Effect Predictor (VEP)"

Try VEP here.

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written by ff.cc.cc ff.cc.cc

Thanks.I tried VEP for 44 synonymous variants but that sounds in these variants we do not have SIFT or PolyPhen prediction in VEP.

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written by Omid Omid

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