Hello Jun, You can find a conservation track on the zebrafish danRer4 assembly. >From the gateway page, toggle "assembly" to "Mar. 2006".
One way you can help to give yourself a "sanity check" is to BLAT the region in question against the appropriate assembly. I hope this information is helpful to you. Please don't hesitate to contact us again if you require further assistance. Kayla Smith UCSC Genome Bioinformatics Group zjun wrote: > > Dear Sir or madame, > > When I was using the genomebroswer to find conserved genomic > sequence for my gene in zebrfish, I found the 5 Species Multiz Alignment & > Conservation > track in medaka, But not in zebrafish. How can I get it display in > zebrafish? Second, I found that the zebrafish�sequence > displayed come from two different chromosomes. > > See > http://www.genome.ucsc.edu/cgi-bin/hgc?hgsid=122572691&o=5045942&t=5046314&g=multiz5way&i=multiz5way&c=chr12&l=5045942&r=5046314&db=oryLat2&pix=620 > > The first block of zebrafish�was�from chromosome 8, the > second block from chromosome 10. While sequence from other species > are on the same genomic locus. > > Is that reasonable? Or just incorrect chromosome annotation? > > I want to use the conserved sequence to find potential Transcription > Factors, What�can I do with the split genomic DNA? > > Best regards! > > Jun > > > ------------------------------------------------------------------------ > > _______________________________________________ > Genome maillist - [email protected] > http://www.soe.ucsc.edu/mailman/listinfo/genome
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