I am looking for any in silico tools that I can use to find mutated exons in a specific gene causing a genetic disorder.
I can find mutations (in uniprot) but I am unable to find the exons.
Hi Muhammad
just go to the UCSC website, you have a genome browser and a table browser. all the available options you'll got on the genome browser will help you getting the sequence of your requested exon (in variation/common SNP...). zooming at the right sequence of your protein you'll got your answer.
fred
Mutated exons can be easily found by downloading the transcripts of a gene from any of the transcript databases like Unigene and doing a multiple sequence alignment of the transcripts along with the genomic sequence of the gene to locate the mutation
The easiest way to align genomic and mRNA (cDNA):
https://www.ncbi.nlm.nih.gov/sutils/splign/splign.cgi?textpage=online&level=form
checking mutated vs. non-mutated alignments will rapidly drive you to a better analysis, also you may understand splicing differences due to mutations.
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