Motifs

This web page was produced as an assignment for Gen677 at UW-Madison Spring 2009

I used http://motif.genome.jp (1) to look for possible DNA binding motifs located throughout the SIRT6 gene sequence. I decided to scan the mouse DNA sequence SIRT6 gene. I then used a standard of only a score of 95 or better and Some of the interesting motifs I found where Rel-1,NF-kappaB, N-Myc, MZF 1, and P-53.

The Rel transcription factor is very interesting because SIRT6 is believed to regulate this subunit of NF-kB. So maybe the Rel transcription factor acts as either a feedback inhibitor or feedback activator by either preventing SIRT6 transcription or activating its transcription. Another interesting find through reading was that the SIRT6 gene has been shown experimental to be regulated by P-53 (). So this was exciting in the sense that the motif finder actually can find specific transcription activators.

The picture is of the Rel transcription factor binding to DNA, this picture shows the two subunits of NF-kB with the green protien bing NF-kB and the red protein being the Rel subunit

Picture From web-book retrieved from http://www.web-books.com/MoBio/Free/Ch4H3.htm

References

1. Bateman A., Birney E., Cerruti L., Durbin R., Etwiller L., Eddy SR., Griffiths-Jones S., Howe K.L., Marshall M. and Sonnhammer E.L. "The Pfam Protein Families Database" Nucl. Acids Res. 30(1):276-280, 2002. PubMed: 11752314

Mark Devries
Email [email protected]
last updated 1/22/09
http://www.gen677.weebly.com