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10-15-2018, 07:42 AM
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#1 |
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Senior Member
Location: US Join Date: Aug 2011
Posts: 106
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converting postions in a gene to genomic coordinates
Hi all,
I'm interested in a way to convert the positions in a gene to the genomic coordinates. So for example, if I have Gene X, and position 200-400 of the mRNA. I would like to be able to get these positions in the mRNA to the genomic positions. It is possible that they would also span an intron-exon boundary which would at a 2nd level of confusion... Thanks, for any help or advice |
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10-25-2018, 01:44 AM
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#2 |
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PhD Student
Location: Denmark Join Date: Jul 2012
Posts: 164
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The easiest way would be to align the sequence using BLAT: https://genome.ucsc.edu/cgi-bin/hgBlat?command=start
If its a handful of bases you can use mutalyzer's position converter: https://mutalyzer.nl/position-converter |
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| Tags |
| converting, genomic coordinates, mrna coordinates |
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