tag:blogger.com,1999:blog-37148773.post4727746309493979584..comments2024-03-27T14:50:47.345-04:00Comments on <center>Sandwalk</center>: How many genes do we have and what happened to the orphans?Larry Moranhttp://www.blogger.com/profile/05756598746605455848noreply@blogger.comBlogger3125tag:blogger.com,1999:blog-37148773.post-13749853814694756312014-07-28T17:44:24.131-04:002014-07-28T17:44:24.131-04:00It's my understanding that an orphan gene has ...It's my understanding that an orphan gene has no homolog in the reference taxon, so a paralog would never be an orphan.John Harshmanhttps://www.blogger.com/profile/06705501480675917237noreply@blogger.comtag:blogger.com,1999:blog-37148773.post-29644096540857712372014-07-28T15:58:40.090-04:002014-07-28T15:58:40.090-04:00If you look at the far right, you'll see that ...<i>If you look at the far right, you'll see that predicted genes that are only found in primates are almost never detected in the mass spec experiments. We all know that such genes, if real, are most likely to be expressed rarely so it may be difficult to detect them.</i><br />This threw me for a bit of a loop, but I think I am mis-interpreting the statement. Would "primate-specific" genes include or exclude primate-specific paralogs & orthologs? Because I know of a fair number of those which are highly expressed in many tissues.Bryanhttps://www.blogger.com/profile/16672407110077541595noreply@blogger.comtag:blogger.com,1999:blog-37148773.post-80631450349460888422014-07-28T15:16:46.146-04:002014-07-28T15:16:46.146-04:00Yes, many "orphan genes" in eukaryotic g...Yes, many "orphan genes" in eukaryotic genomes are likely to be misannotations. However, even in bacterial genomes (where nearly the entire genome encodes protein coding genes) we are still seeing new novel genes (although not to the degree that we did in the 1990s).Jonathan Badgerhttps://www.blogger.com/profile/04921990886076027719noreply@blogger.com