Matt Gethers/CRI, Thailand/Labwork/HmgR Binding Assay/Week of 7.13.08

From OpenWetWare

Jump to: navigation, search

7.15.08

To Do:

  • Come up with shortlist of DNA fragments to use in gel shift assay.
    • Look for HmgR and GpxR boxes (putative boxes from Mayuree) at the HmgA/HmgR promoter (they're divergently transcribed, remember).
    • Maybe write a script to help me find the boxes.


Mayuree suggested a probe, but wants to look into using two different dyes. Want to avoid quenching or FRET - look at excitation and emission spectra.

Dye Excitation Emission 6-Fam Acceptor 6-Fam Donor
6-Fam494518n/an/a
CY3548562nono
CY5650670-700nono
HEX535556nono
Iowa Black//Definitely a quencher of 6-fam
Joe520548close, likelyno
ROX585605nono
TAMRA565580nono
TET521536close, likelyno
Texas Red589615nono

sources: http://www.iss.com/resources/spectra.html

http://www.bdbiosciences.com/spectra/

https://www.omegafilters.com/curvo2/index.php?dyes=269

Personal tools