How do I determine the genetic sequence of a mouse model?

07 June 2022 1 4K Report

I have recently obtained a mouse model B6;129-OoepGt(139A2-3)Cmhd/Mmucd from MMRRC

https://www.mmrrc.org/catalog/sds.php?mmrrc_id=31076

I am having trouble getting our genotyping protocol to work and would like to find the sequence of the gene trap insertion in context of the mouse genome. In other words I want the sequence of the gene including the insertion.

There are elements which could be targeted for PCR such as the LacZ or Neomycin cassettes however from an academic viewpoint this sequence should be available no?

I have found the sequence of the inserted plasmid Gep-SD5 but I would just like to explain differences in PCR amplicons from what we expect. There are a bunch of links on the MMRRC page but I find myself lost.

Any help or pointers would be greatly appreciated!

-Nick

Yoav Lubelsky

http://www.informatics.jax.org/allele/MGI:3812181

Look like this (one of the links in the page you linked) has a description of the insertion site you can use to design your genotyping primers

https://mmrrc.ucdavis.edu/protocols/031076Geno_Protocol.pdf

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