off target RNAi - where to find cross reactivity info

i know that there is information out there about which other genes a particular RNAi probe
might deplete, but i cannot find it. i recall this information being embedded in the Ahringer
library somewhere, but i cannot find it. can someone please post an actual link that i can
follow in order to find this information.

thanks

dorian

Hey Dorian,

try http://www.dkfz.de/signaling/e-rnai3// , there you can check the targets and off-targets of your RNAi.

bye

Bastian

Hello

If you want the complete list just for the Ahringer clones, go to: ftp://caltech.wormbase.org/pub/annots/rnai/

But if you have a single clone, just use Wormbase

e.g. http://www.wormbase.org/db/seq/pcr?name=sjj_ZK666.6;class=PCR_product

only has one target but

http://www.wormbase.org/db/seq/pcr?name=sjj_ZK816.3;class=PCR_product

has 3.

As an alternative, if you have multiple clones, you can also find the information you’re looking for directly in WormMart, specifically using the WS220 (but not WS220-bugfix) release; dataset RNAi. Enter as filter “PCR_Product”, and input your list.