By Wolfsberg Tyra G., Wetterstrand Kris A., Guyer Mark S., Collins Francis S., Baxevanis Andreas D.
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Extra resources for A user's guide to the human genome
To limit the search to ADAM genes only, eliminate the undesired gene symbols with the Boolean NOT term, using the query ADAM*[sym] NOT ADAMTS*[sym] NOT ADAMDEC1*[sym]. The graphic at the top of the returned page shows the location of each gene with a red tick mark (Fig. 1). It is immediately clear that the 19 mapped ADAM genes are distributed among 11 chromosomes, and that some, such as those at the tips of the q arms of chromosomes 10 and 14, are close together. The list at the bottom of the page presents links to the 19 genes.
Some of the hits, like the pairs on the q arms of chromosomes 10 and 14, lie in positions similar to those of ADAMs mapped by the NCBI (Fig. 1), but others, such as those on chromosomes 12 and Y, are unique to the BLAST search. These unique hits may represent real members of the ADAM family that have not yet been named and would therefore not show up in a text-based search. Alternatively, they may be unnamed pseudogenes or nonsignificant BLAST hits. One gene on chromosome 1 is found in the textbased search at the NCBI but not in the BLAST search at Ensembl.
To determine where this sequence maps within the genome, use UCSC’s BLAT tool8. edu. From this page, select Human from the Organism pull-down menu in the blue bar on the side of the page, and then click Blat. Paste the FASTA-formatted sequence obtained from Entrez (above) into the large text box on the BLAT search page (Fig. 3), change the Freeze pull-down menu to Dec. 2001, change the Query pull-down menu to DNA and then press Submit. The server will (very quickly) return the search results; in this case, a single match of length 636 is found on the forward strand of chromosome 9 (Fig.