how to find the expression of an inserted genes?

Question

[yintz]

Hi, everyone, I just have one question want to know how to find out the expression of an inserted genes, for example, you have a transgenic mice with human genes inserted. you know the sequence of the human genes, and also you did a RNAseq for the transgenic mice.

how do you know the inserted gene expression and compare them with the mice gene expression to know?

extra question, if you did RNAseq, could you get the sequence of DNA data? like WGS? and how?

Answer 1

[cmdcolin]

you could add your gene as an extra "contig" to the mouse reference fasta file, and then align all reads to this new fasta file, and finally measure the number of reads aligned to your contig

[cmdcolin]

with the additional question, you might need de-novo assembly of the transcriptome