Corrdinates from ORFs on transcripts

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Question: Corrdinates from ORFs on transcripts

10 weeks ago by

m.bernt • 40

m.bernt • 40 wrote:

Hi,

we have assembled human transcripts with hisat+stringtie. From these we extracted the fasta sequences and obtained the ORFs. For these ORFs we have the coordinates within the corresponding transcripts.

Now we would like to obtain the genome coordinates of the ORFs. Is there any tool for Galaxy that could help us with this task?

Best, Matthias

rna-seq galaxy • 93 views

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modified 9 weeks ago by Jennifer Hillman Jackson ♦ 25k • written 10 weeks ago by m.bernt • 40

9 weeks ago by

Jennifer Hillman Jackson ♦ 25k

United States

Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

These ORF fasta sequences can be mapped back to the reference genome to obtain the coordinates.

Thanks! Jen, Galaxy team

ADD COMMENT • link written 9 weeks ago by Jennifer Hillman Jackson ♦ 25k

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