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How to obtain a refFlat file for the Rat

Hi everyone, I would like to obtain the refFlat.txt file for the rat, but I didn't find anywhere.

If there's anyone here who can help me it'll be helpful cause I'm on a project that requires the refFlat file.

Thanks !

refflat_file rat
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updated by GenoMax GenoMax • written by AIMAR • AIMAR

1 answer

Please don't ask the same question again in a new thread. This was answered a few weeks back: Refflat file for Rattus norvegicus

Change the genome version on the page I linked in answer above if you need something other than rn7 build.

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written by GenoMax GenoMax

I've try the mentioned methods but nothing work that's why I've asked again If I can find a new solution.

Thanks !

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written by AIMAR • AIMAR

but nothing work

What does not work? Once you export a file from the link included, it is in refFlat format.

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written by GenoMax GenoMax

I've download file from the UCSC Table browser tool, but when I used it with gatk collectRnaseqMetrics, there's gene that are not recognize.

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written by AIMAR • AIMAR

You can't mix and match genomes and annotation as we discussed in the prior thread. Are you using the genome from UCSC, if you are using the RefFlat file from there.

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written by GenoMax GenoMax

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