Hi,
I noticed some genes in UCSC has more than one chromosome locations.
e.g. when I search DUX4 in human version 2006 genome browser. I can
get the following position of this gene.
RefSeq Genes
DUX4 at chr4:191245841-191247457 - (NM_033178) double homeobox, 4
DUX4 at chr4:191232654-191234270 - (NM_033178) double homeobox, 4
DUX4 at chr4:191229361-191230977 - (NM_033178) double homeobox, 4
DUX4 at chr4:191239248-191240864 - (NM_033178) double homeobox, 4
DUX4 at chr4:191242541-191244157 - (NM_033178) double homeobox, 4
DUX4 at chr10:135330358-135335265 - (NM_033178) double homeobox, 4
DUX4 at chr10:135333669-135338574 - (NM_033178) double homeobox, 4
This gene has only one refseq accession number (NM_033178). But it was
mapped on different chromosome (chr4 and chr10).
So what happened? I noticed that NCBI Entrez gene database only mapped
this gene on a specific location on chr4.
Other genes like LOC728340, SULT1A3, XAGE1D etc. also have this problem.
I noticed many gene were mapped on both chrX and chrY. I saw the
following assembly description at http://genome.ucsc.edu/cgi-bin/hgGateway
"The Y chromosome in this assembly contains two pseudoautosomal regions
(PARs) at chrY:1-2709520 and chrY:57443438-57772954. These sequences
were taken from the corresponding regions in the X chromosome and are
exact duplications of the X chromosome sequences at chrX:1-2709520 and
chrX:154584237-154913754, respectively."
Does this means those genes mapped on both ChrX and ChrY should be only
mapped on ChrX?
Thanks.
Anyuan Guo
_______________________________________________
Genome maillist - [email protected]
http://www.soe.ucsc.edu/mailman/listinfo/genome
