{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,18]],"date-time":"2026-09-18T11:56:41Z","timestamp":1789732601937,"version":"4.0.1"},"reference-count":52,"publisher":"Cold Spring Harbor Laboratory","issue":"1","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Genome Res."],"published-print":{"date-parts":[[2001,1,1]]},"abstract":"<jats:p>Long-range comparative sequence analysis provides a powerful strategy for identifying conserved regulatory elements. The stem cell leukemia (<jats:italic>SCL<\/jats:italic>) gene encodes a bHLH transcription factor with a pivotal role in hemopoiesis and vasculogenesis, and it displays a highly conserved expression pattern. We present here a detailed sequence comparison of 193 kb of the human <jats:italic>SCL<\/jats:italic> locus to 234 kb of the mouse <jats:italic>SCL<\/jats:italic> locus. Four new genes have been identified together with an ancient mitochondrial insertion in the human locus. The <jats:italic>SCL<\/jats:italic> gene is flanked upstream by the<jats:italic>SIL<\/jats:italic> gene and downstream by the <jats:italic>MAP17<\/jats:italic> gene in both species, but the gene order is not collinear downstream from<jats:italic>MAP17<\/jats:italic>. To facilitate rapid identification of candidate regulatory elements, we have developed a new sequence analysis tool (SynPlot) that automates the graphical display of large-scale sequence alignments. Unlike existing programs, SynPlot can display the locus features of more than one sequence, thereby indicating the position of homology peaks relative to the structure of all sequences in the alignment. In addition, high-resolution analysis of the chromatin structure of the mouse <jats:italic>SCL<\/jats:italic> gene permitted the accurate positioning of localized zones accessible to restriction endonucleases. Zones known to be associated with functional regulatory regions were found to correspond precisely with peaks of human\/mouse homology, thus demonstrating that long-range human\/mouse sequence comparisons allow accurate prediction of the extent of accessible DNA associated with active regulatory regions.<\/jats:p>","DOI":"10.1101\/gr.153001","type":"journal-article","created":{"date-parts":[[2002,7,27]],"date-time":"2002-07-27T00:00:34Z","timestamp":1027728034000},"page":"87-97","source":"Crossref","is-referenced-by-count":69,"title":["Long-Range Comparison of Human and Mouse <i>SCL<\/i> Loci: Localized Regions of Sensitivity to Restriction Endonucleases Correspond Precisely with Peaks of Conserved Noncoding Sequences"],"prefix":"10.1101","volume":"11","author":[{"given":"Berthold","family":"G\u00f6ttgens","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"James G.R.","family":"Gilbert","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Linda M.","family":"Barton","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Darren","family":"Grafham","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jane","family":"Rogers","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David R.","family":"Bentley","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anthony R.","family":"Green","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"246","published-online":{"date-parts":[[2001,1,1]]},"reference":[{"key":"2021111810451414000_11.1.87.1","doi-asserted-by":"publisher","DOI":"10.1006\/jmbi.1990.9999"},{"key":"2021111810451414000_11.1.87.2","first-page":"29","article-title":"Comparative sequence analysis of a gene-rich cluster at human chromosome 12p13 and its syntenic region in mouse chromosome 6.","volume":"8","author":"Ansari-Lari","year":"1998","journal-title":"Genome Res."},{"key":"2021111810451414000_11.1.87.3","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.92.5.1684"},{"key":"2021111810451414000_11.1.87.4","doi-asserted-by":"publisher","DOI":"10.1016\/S1357-2725(99)00082-5"},{"key":"2021111810451414000_11.1.87.5","doi-asserted-by":"publisher","DOI":"10.1101\/gr.10.7.950"},{"key":"2021111810451414000_11.1.87.6","doi-asserted-by":"crossref","first-page":"2760","DOI":"10.1182\/blood.V93.9.2760","article-title":"The SCL gene: From case report to critical hematopoietic regulator.","volume":"93","author":"Begley","year":"1999","journal-title":"Blood"},{"key":"2021111810451414000_11.1.87.7","doi-asserted-by":"publisher","DOI":"10.1016\/S0378-1119(99)00485-0"},{"key":"2021111810451414000_11.1.87.8","doi-asserted-by":"crossref","first-page":"1502","DOI":"10.1182\/blood.V86.4.1502.bloodjournal8641502","article-title":"Lineage-restricted regulation of the murine SCL\/TAL-1 promoter.","volume":"86","author":"Bockamp","year":"1995","journal-title":"Blood"},{"key":"2021111810451414000_11.1.87.9","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.272.13.8781"},{"key":"2021111810451414000_11.1.87.10","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.273.44.29032"},{"key":"2021111810451414000_11.1.87.11","doi-asserted-by":"crossref","first-page":"2496","DOI":"10.1002\/j.1460-2075.1996.tb00607.x","article-title":"Tissue-specific factors additively increase the probability of the all-or-none-formation of a hypersensitive site.","volume":"15","author":"Boyes","year":"1996","journal-title":"EMBO J."},{"key":"2021111810451414000_11.1.87.12","doi-asserted-by":"publisher","DOI":"10.1007\/s003359900951"},{"key":"2021111810451414000_11.1.87.13","doi-asserted-by":"publisher","DOI":"10.1016\/S0378-1119(99)00219-X"},{"key":"2021111810451414000_11.1.87.14","doi-asserted-by":"crossref","first-page":"1671","DOI":"10.1182\/blood.V95.5.1671.005k39_1671_1679","article-title":"Vasculogenesis in the day 6.5 to 9.5 mouse embryo.","volume":"95","author":"Drake","year":"2000","journal-title":"Blood"},{"key":"2021111810451414000_11.1.87.15","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.57.3.790"},{"key":"2021111810451414000_11.1.87.16","unstructured":"Durbin, R. and Mieg, J.T. 1991. 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