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Article: Large-scale sequencing of two regions in human chromosome 7q22: Analysis of 650 kb of genomic sequence around the EPO and CUTL1 loci reveals 17 genes

TitleLarge-scale sequencing of two regions in human chromosome 7q22: Analysis of 650 kb of genomic sequence around the EPO and CUTL1 loci reveals 17 genes
Authors
Issue Date1998
PublisherCold Spring Harbor Laboratory Press, Publications Department. The Journal's web site is located at http://www.genome.org
Citation
Genome Research, 1998, v. 8 n. 10, p. 1060-1073 How to Cite?
AbstractWe have sequenced and annotated two genomic regions located in the Giemsa negative band q22 of human chromosome 7. The first region defined by the erythropoietin (EPO) locus is 228 kb in length and contains 13 genes. Whereas 3 genes (GNB2, EPO, PCOLCE) were known previously on the mRNA level, we have been able to identify 10 novel genes using a newly developed automatic annotation tool RUMMAGE-DP, which comprises > 26 different programs mainly for exon prediction, homology searches, and compositional and repeat analysis. For precise annotation we have also resequenced ESTs identified to the region and assembled them to build large cDNAs. In addition, we have investigated the differential splicing of genes. Using these tools we annotated 4 of the 10 genes as a zonadhesin, a transferrin homolog, a nucleoporin-like gene, and an actin gene. Two genes showed weak similarity to an insulin-like receptor and a neuronal protein with a leucine-rich amino-terminal domain. Four predicted genes (CDS1-CDS4) CDS that have been confirmed on the mRNA level showed no similarity to known proteins and a potential function could not be assigned. The second region in 7q22 defined by the CUTL1 (CCAAT displacement protein and its splice variant) locus is 416 kb in length and contains three known genes, including PMSL12, APS, CUTL1, and a novel gene (CDS5). The CUTL1 locus, consisting of two splice variants (CDP and CASP), occupies > 300 kb. Based on the G,C profile an isochore switch can be defined between the CUTL1 gene and the APS and PMSL12 genes.
Persistent Identifierhttp://hdl.handle.net/10722/49364
ISSN
2015 Impact Factor: 11.351
2015 SCImago Journal Rankings: 14.352
PubMed Central ID
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorGlockner, Gen_HK
dc.contributor.authorScherer, Sen_HK
dc.contributor.authorSchattevoy, Ren_HK
dc.contributor.authorBoright, Aen_HK
dc.contributor.authorWeber, Jen_HK
dc.contributor.authorTsui, LCen_HK
dc.contributor.authorRosenthal, Aen_HK
dc.date.accessioned2008-06-12T06:40:29Z-
dc.date.available2008-06-12T06:40:29Z-
dc.date.issued1998en_HK
dc.identifier.citationGenome Research, 1998, v. 8 n. 10, p. 1060-1073en_HK
dc.identifier.issn1088-9051en_HK
dc.identifier.urihttp://hdl.handle.net/10722/49364-
dc.description.abstractWe have sequenced and annotated two genomic regions located in the Giemsa negative band q22 of human chromosome 7. The first region defined by the erythropoietin (EPO) locus is 228 kb in length and contains 13 genes. Whereas 3 genes (GNB2, EPO, PCOLCE) were known previously on the mRNA level, we have been able to identify 10 novel genes using a newly developed automatic annotation tool RUMMAGE-DP, which comprises > 26 different programs mainly for exon prediction, homology searches, and compositional and repeat analysis. For precise annotation we have also resequenced ESTs identified to the region and assembled them to build large cDNAs. In addition, we have investigated the differential splicing of genes. Using these tools we annotated 4 of the 10 genes as a zonadhesin, a transferrin homolog, a nucleoporin-like gene, and an actin gene. Two genes showed weak similarity to an insulin-like receptor and a neuronal protein with a leucine-rich amino-terminal domain. Four predicted genes (CDS1-CDS4) CDS that have been confirmed on the mRNA level showed no similarity to known proteins and a potential function could not be assigned. The second region in 7q22 defined by the CUTL1 (CCAAT displacement protein and its splice variant) locus is 416 kb in length and contains three known genes, including PMSL12, APS, CUTL1, and a novel gene (CDS5). The CUTL1 locus, consisting of two splice variants (CDP and CASP), occupies > 300 kb. Based on the G,C profile an isochore switch can be defined between the CUTL1 gene and the APS and PMSL12 genes.en_HK
dc.format.extent386 bytes-
dc.format.mimetypetext/html-
dc.languageengen_HK
dc.publisherCold Spring Harbor Laboratory Press, Publications Department. The Journal's web site is located at http://www.genome.orgen_HK
dc.relation.ispartofGenome Researchen_HK
dc.rightsCreative Commons: Attribution 3.0 Hong Kong License-
dc.subject.meshChromosomes, Human, Pair 7 - geneticsen_HK
dc.subject.meshErythropoietin - geneticsen_HK
dc.subject.meshExons - geneticsen_HK
dc.subject.meshNuclear Proteins - geneticsen_HK
dc.subject.meshRepressor Proteins - geneticsen_HK
dc.titleLarge-scale sequencing of two regions in human chromosome 7q22: Analysis of 650 kb of genomic sequence around the EPO and CUTL1 loci reveals 17 genesen_HK
dc.typeArticleen_HK
dc.identifier.openurlhttp://library.hku.hk:4550/resserv?sid=HKU:IR&issn=1088-9051&volume=8&issue=10&spage=1060&epage=1073&date=1998&atitle=Large-scale+sequencing+of+two+regions+in+human+chromosome+7q22:+analysis+of+650+kb+of+genomic+sequence+around+the+EPO+and+CUTL1+loci+reveals+17+genesen_HK
dc.identifier.emailTsui, LC: tsuilc@hkucc.hku.hken_HK
dc.identifier.authorityTsui, LC=rp00058en_HK
dc.description.naturepublished_or_final_versionen_HK
dc.identifier.pmid9799793-
dc.identifier.pmcidPMC310788en_HK
dc.identifier.scopuseid_2-s2.0-0031783567en_HK
dc.identifier.volume8en_HK
dc.identifier.issue10en_HK
dc.identifier.spage1060en_HK
dc.identifier.epage1073en_HK
dc.identifier.isiWOS:000076864200007-
dc.publisher.placeUnited Statesen_HK
dc.identifier.scopusauthoridGlockner, G=7004745704en_HK
dc.identifier.scopusauthoridScherer, S=7201935714en_HK
dc.identifier.scopusauthoridSchattevoy, R=6603590268en_HK
dc.identifier.scopusauthoridBoright, A=6603298498en_HK
dc.identifier.scopusauthoridWeber, J=55249115800en_HK
dc.identifier.scopusauthoridTsui, LC=7102754167en_HK
dc.identifier.scopusauthoridRosenthal, A=7203080010en_HK

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