Dear Bathri

First you collect all transcripts and the genomic sequence associated with your gene of interest from Unigene database, do a multiple sequence alignment and check for the existing variations (you can also check in Gene cards database for existing variations). Now design primers to amplify the exon from genomic DNA isolated from the members of the population, sequence the amplified fragments and do multiple sequence alignment of the new sequences, identify the variants and compare with the already existing variants to find novel variations.

Sincerely

K.ULAGANATHAN

This is what you are looking for I guess.

>> with this web-based program,you can insert you gene of interest and it will give you the ensemble transcripts. With the results obtained, you can analyze the region of the mutation i.e. if it is exonic region on not. Pre-requisite is the availability of the accession in the ensemble database.

http://www.mutationtaster.org/

Your objective is to do allele mining for a particular gene of interest in your population. Please read the topic allele mining. There is so much material on allele mining on web. You can go for sequence based allele mining or reverse genetic based approach "TILLING"

Thanks sir