[Genome] chicken chromosome lengths

[Kayla Smith]

Carl,

You are correct in assuming that the discrepancy you have observed is 
related to which build you are looking at.   We actually offer two 
different assemblies of the Chicken Browser:  galGal2 (Feb 2004) and 
galGal3 (May 2006).  From the data you have pasted below, it looks like 
you were viewing our galGal3 browser (this is the default) and comparing 
it to Ensembl's equivalent of the galGal2 assembly.

On the gateway page, http://genome.ucsc.edu/cgi-bin/hgGateway, you can 
toggle between galGal2 and galGal3.  Each assembly has a "sequences" 
link which will give you information on the length of each chromosome.

GalGal3:
chr1:  200,994,015
chr27:  4,841,970

GalGal2:
chr1:  188,239,860
chr27:  2,668,888


I hope this helps to answer your question.  Please don't hesitate to 
contact us again if you require further assistance.

Kayla Smith
UCSC Genome Bioinformatics Group


Carl Schmidt wrote:
> For the chicken, why are there differences in the total size of  
> chromosomes when I compare between UCSC and Ensembl?  I suppose it  
> has something to do with the build, but I am concerned about trying  
> to use coordinates in from one browser to access information in the  
> other.
>   For example:
> CH1	UCSC 200,994,015				ENSEMBL 188,239,860  	
> CH 27 	UCSC:4,841,970					ENSEMBL: 2,668,888
> 
> 
> 
> Carl J. Schmidt
> Associate Professor
> Department of Animal & Food Sciences
> 051 Townsend Hall
> University of Delaware
> Newark, DE 19716-2150
> 
> schmidtc at udel.edu
> 302-831-1334
> Fax: 302-831-2822
> http://udel.edu/~schmidtc
> 
> 
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