This is a test version of Biostars. For the public version, visit https://www.biostars.org.
What happens to this gene?

I found many reads mapped to a gene in a wired way, any suggestion on what happens here?

Assuming the gene has sequence:

ABCDEFGHIJK Its complement are abcdefghijk

The reads are like:

kjihgABCDEF

What kind of chromosome rearrangement could produce this? or artifacts?

chromosome transversion
• 1,714 views • link
updated by John John • written by fengzys fengzys

Man, I would love to engineer an organism where there's a mobius-strip for a genome.

You'd have a co-ordinate system twice the length of the genome, but no forward or reverse strands :P hahaha.

• 2 views • link
written by John John

1 answer

Top example : http://www.biology-online.org/2/8_mutations.htm

Note that in your notation that would be "ABCfed..."

• 2 views • link
written by John John

I think in this case it'd be a translocated inversion.

• 2 views • link
written by Devon Ryan Devon Ryan

It could be, that's definitely one possibility - but if the sequencing isn't stranded it could also look like:

ABCDEFGHIJK becomes fedcbaGHIJK (first half gets inverted),

the reverse compliment of which (if you sequence the other strand) is kjihgABCDEF

• 2 views • link
written by John John

Log in to answer this question.

More posts like this