If I want to determine a sequence that is conserved among all variants of Klebsiella pneumoniae carbapenemase gene What are the ideal steps in details. Is there a special website for this purpose .
I hope I know all your recommendations that will be important to me .
Thank you in advance.
If you are searching for a motif, try
http://meme-suite.org/tools/meme
otherwise, if you are searching for larger subsequences (>=20bp) try "ordinary" BLAST
http://blast.ncbi.nlm.nih.gov/Blast.cgi?PROGRAM=blastn&PAGE_TYPE=BlastSearch&LINK_LOC=blasthome
Dear Suzan M. Ragheb,
It is very easy. you can go on the website:
http://www.ncbi.nlm.nih.gov/
here you can change all databases to nucleiotide and then type in the box your desire carbapenemase gene name.
after that you can click on search. and than you will get your all desire complete DNA sequences and than click on any gene of bacterium.
and after that yoy can see conserved sequence among gene variants.
and if you want to see the particular gene you can go on particular gene and click on FASTA format of the gene.
Best Regards,
Dr Anand
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