Differences between genomic coordinates for CFTR in Ensembl GRCh37.p13 and NCBI GRCh37.p13

Question

[andrew.prayle]

Apologies if this is too simple. I am interested in CFTR. When I look it up in NCBI gene, with the following:

http://www.ncbi.nlm.nih.gov/gene/?term=cftr[sym]+AND+human[orgn]

I get the genomic coordinates using GRCg37.p13 on chromosome 7 to be 117120017..117308719 (NC_000007.13)

However, when I search Ensembl, also using GRCg37.p13 looking for CFTR I get the co-ordinates 117105838 - 117356025.

What am I missing here?

Thanks
Andrew

Answer 1

[Emily]

There are many more non-coding transcripts of CFTR annotated by Ensembl, which extend out the coordinates of the gene, as you can see in the graphics on Ensembl and NCBI.

[andrew.prayle]

Thanks! So as the CFTR-001 is roughly the same co-ordinates, is this the same as the NCBI sequence?

[Emily]

It has a CCDS, so the coding sequence at least is the same.

[andrew.prayle]

Thanks! Very useful to know.