Orthologous sequence between Mouse and Human
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3.2 years ago
evocanres ▴ 30

I am working with mouse genome. There is a small segment in the mouse genome of which I want to know the orthologous human chromosomal coordindates.

I have done that my extracting the genes from the mouse genome and then finding homology in human genomes and I have got a list of genes.

However, I feel it will be much better if I find the orthologous co-ordinates in humans of the mouse genome co-ordinates. Any suggestions how to do that?

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Have you checked Mouse Genome Informatics (MGI) on human-mouse homology?

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I just downloaded it. I am guessing it still gives gene per gene homology, which is certainly useful in many aspects. I believe for me, it will be most useful if it extract orthologous regions of human genome.

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3.2 years ago
evocanres ▴ 30

Alternatively can I ask, if I use Mouse Genome Informatics(MGI) to get mouse-human homology, of lets say a 2 MB of chr8 of mouse genome, and the the genes in human are spread across 2 chromsomes and are discontinous.

  1. Does it mean the sequence between the two orthologous genes (A and B) on the same chromosomes is not relevant ?

  2. Will some regions of homology be missed by getting gene-to-gene homology?

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You could try looking via NCBI comparative genome maps for human/mouse/rat.

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Thank you. That looks useful.

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