Hey All, I have a question about chromosomal coordinates and Htseq. If I wanted to see if reads mapped to the chromosome location 4544400:4559600 on chromosome 1 the gtf line for this would be
chr1 piRNAbank 4544400 4559600 15200 + . gene_id "piRNAcluster_1"
Now lets say I wanted to see if the reads I have map to this same region on the reverse complement or - strand would the gtf entry be
chr1 piRNAbank 4544400 4559600 15200 - . gene_id "piRNAcluster_1"
or would I have to get different coordinates for the reverse complement?
Hopefully this makes sense and thanks for the help!
Leanne
chr1 piRNAbank 4544400 4559600 15200 + . gene_id "piRNAcluster_1"
Now lets say I wanted to see if the reads I have map to this same region on the reverse complement or - strand would the gtf entry be
chr1 piRNAbank 4544400 4559600 15200 - . gene_id "piRNAcluster_1"
or would I have to get different coordinates for the reverse complement?
Hopefully this makes sense and thanks for the help!
Leanne
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