Gene Position in Human Genome - (Nov/23/2004 )
I would like to ask a question.
I am trying to identify the position of gene NM_000437 in the human genome sequence.
However, I get several slightly different positions. Which positions should I take in this case?
The below result is from UCSC Browser:
NM_000437 at chr1:25520304-25557579 - (BC001158) platelet-activating factor acetylhydrolase 2, 40kDa
PAFAH2 at chr1:25520358-25557692 - (NM_000437) platelet-activating factor acetylhydrolase 2
The following result is from ENSEMBL:
View gene in genomic location: 25971457 - 26008790 bp (26.0 Mb) on chromosome 1
I am confuse as to why there is such different. Is it because the human genome sequences come from different people? Can anybody enlighten me please? Thanks in advance.
Thanks and Best Regards,
it is not a suprise.
Some years ago there were two human genome assemblies which later were combined into one. There are still subtle differences in the coordinates of a given genes among different genome browsers. I guess this is caused by the different annotation pipeline used by UCSC, ensembl and NCBI.
thanks for your reply.
May I ask you something? Is there any easier method to find the gene position in the human genome?
Currently I get the gene position from NCBI which links to the HNGC and then link to UCSC.
I suppose that there is an easier method to get the information.
Thanks in advance.