You can purify total RNA or better mRNA and then perform primer extension with a primer starting downstream of the start codon of that particular gene, then perform DNA sequencing reactions of the corresponding DNA fragment, and run the primer extension and DNA sequencing reactions on a sequencing gel. You would be able to determine the precise transcription start site of your gene. At least, you can obtain "a long stretch" of the sequence upstream of the start codon. Hope this helps.

Thank you Hua Xiao for the answer. But I was looking for in silico approaches. Can you shade some light on that?

Thanks in advance.

Hi Fahmid

just go to the UCSC site (http://genome.ucsc.edu), go to genome browser, choose the assembly and the gene, click and you'll see the gene with some tracks. direct click on the name of your gene in the track and you'll arrive on some informations on your gene. choose genomic sequence and you'll see what you're searching for.

fred

I forgot some thing: direct click on the name of your gene in the track named UCSC genes (if this track is not present in the browser, make it appear in the track listings below).

fred

Hello,

A very simple way:

Go to the NCBI > Gene > click on the "NM_#" of your gene > When the sequence appeared > Click on "CDS".

Good luck.