Sequence Analysis of Two Genomic Regions Containing the KIT and the FMS Receptor Tyrosine Kinase Genes
The KIT and FMS tyrosine kinase receptors, which are implicated in the control of cell growth and differentiation, stem through duplications from a common ancestor. We have conducted a detailed structural analysis of the two loci containing the KIT and FMS genes. The sequence of the ∼90-kb KIT locus...
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| Veröffentlicht in: | Genomics 1997-01, Vol.39 (2), p.216-226 |
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| creator | Andre, Catherine Hampe, Annie Lachaume, Philippe Martin, Emmanuel Wang, Xao-Ping Manus, Vladimir Hu, Wei-Xin Galibert, Francis |
| description | The KIT and FMS tyrosine kinase receptors, which are implicated in the control of cell growth and differentiation, stem through duplications from a common ancestor. We have conducted a detailed structural analysis of the two loci containing the KIT and FMS genes. The sequence of the ∼90-kb KIT locus reveals the position and size of the 21 introns and of the 5′ regulatory region of the KIT gene. The introns and the 3′-untranslated parts of KIT and FMS have been analyzed in parallel. Comparison of the two sequences shows that, while introns of both genes have extensively diverged in size and sequence, this divergence is, at least in part, due to intron expansion through internal duplications, as suggested by the discrete extant analogies. Repetitive elements as well as exon predictions obtained using the GRAIL and GENEFINDER programs are described in detail. These programs led us to identify a novel gene, designated SMF, immediately downstream of FMS, in the opposite orientation. This finding emphasizes the gene-rich characteristic of this genomic region. |
| doi_str_mv | 10.1006/geno.1996.4482 |
| format | Article |
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We have conducted a detailed structural analysis of the two loci containing the KIT and FMS genes. The sequence of the ∼90-kb KIT locus reveals the position and size of the 21 introns and of the 5′ regulatory region of the KIT gene. The introns and the 3′-untranslated parts of KIT and FMS have been analyzed in parallel. Comparison of the two sequences shows that, while introns of both genes have extensively diverged in size and sequence, this divergence is, at least in part, due to intron expansion through internal duplications, as suggested by the discrete extant analogies. Repetitive elements as well as exon predictions obtained using the GRAIL and GENEFINDER programs are described in detail. These programs led us to identify a novel gene, designated SMF, immediately downstream of FMS, in the opposite orientation. This finding emphasizes the gene-rich characteristic of this genomic region.</description><identifier>ISSN: 0888-7543</identifier><identifier>EISSN: 1089-8646</identifier><identifier>DOI: 10.1006/geno.1996.4482</identifier><identifier>PMID: 9027509</identifier><language>eng</language><publisher>San Diego, CA: Elsevier Inc</publisher><subject>ANIMAL CELLS ; Animals ; Base Sequence ; Biological and medical sciences ; BIOLOGICAL EVOLUTION ; BIOLOGY AND MEDICINE, BASIC STUDIES ; CELL DIFFERENTIATION ; CELL PROLIFERATION ; Chromosomes, Human, Pair 4 ; Chromosomes, Human, Pair 5 ; Cloning, Molecular ; DNA SEQUENCING ; DNA-CLONING ; Exons ; Fundamental and applied biological sciences. Psychology ; G CODES ; GENE MUTATIONS ; Genes, fms ; Genes. 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We have conducted a detailed structural analysis of the two loci containing the KIT and FMS genes. The sequence of the ∼90-kb KIT locus reveals the position and size of the 21 introns and of the 5′ regulatory region of the KIT gene. The introns and the 3′-untranslated parts of KIT and FMS have been analyzed in parallel. Comparison of the two sequences shows that, while introns of both genes have extensively diverged in size and sequence, this divergence is, at least in part, due to intron expansion through internal duplications, as suggested by the discrete extant analogies. Repetitive elements as well as exon predictions obtained using the GRAIL and GENEFINDER programs are described in detail. These programs led us to identify a novel gene, designated SMF, immediately downstream of FMS, in the opposite orientation. This finding emphasizes the gene-rich characteristic of this genomic region.</description><subject>ANIMAL CELLS</subject><subject>Animals</subject><subject>Base Sequence</subject><subject>Biological and medical sciences</subject><subject>BIOLOGICAL EVOLUTION</subject><subject>BIOLOGY AND MEDICINE, BASIC STUDIES</subject><subject>CELL DIFFERENTIATION</subject><subject>CELL PROLIFERATION</subject><subject>Chromosomes, Human, Pair 4</subject><subject>Chromosomes, Human, Pair 5</subject><subject>Cloning, Molecular</subject><subject>DNA SEQUENCING</subject><subject>DNA-CLONING</subject><subject>Exons</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>G CODES</subject><subject>GENE MUTATIONS</subject><subject>Genes, fms</subject><subject>Genes. Genome</subject><subject>GENETIC MAPPING</subject><subject>GROWTH</subject><subject>HUMAN CHROMOSOMES</subject><subject>Humans</subject><subject>INTRONS</subject><subject>Mice</subject><subject>Microsatellite Repeats</subject><subject>Molecular and cellular biology</subject><subject>Molecular genetics</subject><subject>Molecular Sequence Data</subject><subject>NUCLEOTIDES</subject><subject>ONCOGENES</subject><subject>PHOSPHORYLATION</subject><subject>PHOSPHOTRANSFERASES</subject><subject>POLYMERASE CHAIN REACTION</subject><subject>Proto-Oncogene Proteins c-kit - genetics</subject><subject>RECEPTORS</subject><subject>Repetitive Sequences, Nucleic Acid</subject><subject>Sequence Homology, Nucleic Acid</subject><subject>SIZE</subject><subject>STRUCTURE-ACTIVITY RELATIONSHIPS</subject><subject>TYROSINE</subject><issn>0888-7543</issn><issn>1089-8646</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1997</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkUGPEyEYhonRrHX16s0EE-NtKlBg4Lhp3HXjGhO3ngkDH13MFCpMNf33MrbZm_EEyffwhvd7EHpNyZISIj9sIeUl1VouOVfsCVpQonSnJJdP0YIopbpe8NVz9KLWH4QQvVLsAl1ownpB9AKFe_h5gOQAXyU7HmusOAe8-Z3xTQveRYe_wTbmVPE6p8nGFNMWTw-AP99usE3-7_36y33DHOynXPDmWHKNqREx2QpzDtSX6FmwY4VX5_MSfb_-uFl_6u6-3tyur-46xzWdOi25ENxxqjRQQT3Tg9aMaW19CH1PBQnMCQHWcUttGAbnvfODCF4zKSSsLtHbU26uUzTVxQncg8spgZuMoGpFaWPen5h9ya17ncwuVgfjaBPkQzW9Uowp1f8XpELJXkvSwOUJdK16LRDMvsSdLUdDiZktmdmSmS2Z2VJ78OacfBh24B_xs5Y2f3ee2-rsGIpNLtZHjAlJRM8bpk4YtJX-ilDmxrNMH8tc2Of4rx_8ATvVrSQ</recordid><startdate>19970115</startdate><enddate>19970115</enddate><creator>Andre, Catherine</creator><creator>Hampe, Annie</creator><creator>Lachaume, Philippe</creator><creator>Martin, Emmanuel</creator><creator>Wang, Xao-Ping</creator><creator>Manus, Vladimir</creator><creator>Hu, Wei-Xin</creator><creator>Galibert, Francis</creator><general>Elsevier Inc</general><general>Elsevier</general><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7TM</scope><scope>7X8</scope><scope>OTOTI</scope></search><sort><creationdate>19970115</creationdate><title>Sequence Analysis of Two Genomic Regions Containing the KIT and the FMS Receptor Tyrosine Kinase Genes</title><author>Andre, Catherine ; Hampe, Annie ; Lachaume, Philippe ; Martin, Emmanuel ; Wang, Xao-Ping ; Manus, Vladimir ; Hu, Wei-Xin ; Galibert, Francis</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c491t-964554c4189e151d29b992299adff77150f2c55eac4a1afbbcddcdb5fd92656e3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1997</creationdate><topic>ANIMAL CELLS</topic><topic>Animals</topic><topic>Base Sequence</topic><topic>Biological and medical sciences</topic><topic>BIOLOGICAL EVOLUTION</topic><topic>BIOLOGY AND MEDICINE, BASIC STUDIES</topic><topic>CELL DIFFERENTIATION</topic><topic>CELL PROLIFERATION</topic><topic>Chromosomes, Human, Pair 4</topic><topic>Chromosomes, Human, Pair 5</topic><topic>Cloning, Molecular</topic><topic>DNA SEQUENCING</topic><topic>DNA-CLONING</topic><topic>Exons</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>G CODES</topic><topic>GENE MUTATIONS</topic><topic>Genes, fms</topic><topic>Genes. Genome</topic><topic>GENETIC MAPPING</topic><topic>GROWTH</topic><topic>HUMAN CHROMOSOMES</topic><topic>Humans</topic><topic>INTRONS</topic><topic>Mice</topic><topic>Microsatellite Repeats</topic><topic>Molecular and cellular biology</topic><topic>Molecular genetics</topic><topic>Molecular Sequence Data</topic><topic>NUCLEOTIDES</topic><topic>ONCOGENES</topic><topic>PHOSPHORYLATION</topic><topic>PHOSPHOTRANSFERASES</topic><topic>POLYMERASE CHAIN REACTION</topic><topic>Proto-Oncogene Proteins c-kit - genetics</topic><topic>RECEPTORS</topic><topic>Repetitive Sequences, Nucleic Acid</topic><topic>Sequence Homology, Nucleic Acid</topic><topic>SIZE</topic><topic>STRUCTURE-ACTIVITY RELATIONSHIPS</topic><topic>TYROSINE</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Andre, Catherine</creatorcontrib><creatorcontrib>Hampe, Annie</creatorcontrib><creatorcontrib>Lachaume, Philippe</creatorcontrib><creatorcontrib>Martin, Emmanuel</creatorcontrib><creatorcontrib>Wang, Xao-Ping</creatorcontrib><creatorcontrib>Manus, Vladimir</creatorcontrib><creatorcontrib>Hu, Wei-Xin</creatorcontrib><creatorcontrib>Galibert, Francis</creatorcontrib><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Nucleic Acids Abstracts</collection><collection>MEDLINE - Academic</collection><collection>OSTI.GOV</collection><jtitle>Genomics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Andre, Catherine</au><au>Hampe, Annie</au><au>Lachaume, Philippe</au><au>Martin, Emmanuel</au><au>Wang, Xao-Ping</au><au>Manus, Vladimir</au><au>Hu, Wei-Xin</au><au>Galibert, Francis</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Sequence Analysis of Two Genomic Regions Containing the KIT and the FMS Receptor Tyrosine Kinase Genes</atitle><jtitle>Genomics</jtitle><addtitle>Genomics</addtitle><date>1997-01-15</date><risdate>1997</risdate><volume>39</volume><issue>2</issue><spage>216</spage><epage>226</epage><pages>216-226</pages><issn>0888-7543</issn><eissn>1089-8646</eissn><abstract>The KIT and FMS tyrosine kinase receptors, which are implicated in the control of cell growth and differentiation, stem through duplications from a common ancestor. We have conducted a detailed structural analysis of the two loci containing the KIT and FMS genes. The sequence of the ∼90-kb KIT locus reveals the position and size of the 21 introns and of the 5′ regulatory region of the KIT gene. The introns and the 3′-untranslated parts of KIT and FMS have been analyzed in parallel. Comparison of the two sequences shows that, while introns of both genes have extensively diverged in size and sequence, this divergence is, at least in part, due to intron expansion through internal duplications, as suggested by the discrete extant analogies. Repetitive elements as well as exon predictions obtained using the GRAIL and GENEFINDER programs are described in detail. These programs led us to identify a novel gene, designated SMF, immediately downstream of FMS, in the opposite orientation. This finding emphasizes the gene-rich characteristic of this genomic region.</abstract><cop>San Diego, CA</cop><pub>Elsevier Inc</pub><pmid>9027509</pmid><doi>10.1006/geno.1996.4482</doi><tpages>11</tpages></addata></record> |
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| subjects | ANIMAL CELLS Animals Base Sequence Biological and medical sciences BIOLOGICAL EVOLUTION BIOLOGY AND MEDICINE, BASIC STUDIES CELL DIFFERENTIATION CELL PROLIFERATION Chromosomes, Human, Pair 4 Chromosomes, Human, Pair 5 Cloning, Molecular DNA SEQUENCING DNA-CLONING Exons Fundamental and applied biological sciences. Psychology G CODES GENE MUTATIONS Genes, fms Genes. Genome GENETIC MAPPING GROWTH HUMAN CHROMOSOMES Humans INTRONS Mice Microsatellite Repeats Molecular and cellular biology Molecular genetics Molecular Sequence Data NUCLEOTIDES ONCOGENES PHOSPHORYLATION PHOSPHOTRANSFERASES POLYMERASE CHAIN REACTION Proto-Oncogene Proteins c-kit - genetics RECEPTORS Repetitive Sequences, Nucleic Acid Sequence Homology, Nucleic Acid SIZE STRUCTURE-ACTIVITY RELATIONSHIPS TYROSINE |
| title | Sequence Analysis of Two Genomic Regions Containing the KIT and the FMS Receptor Tyrosine Kinase Genes |
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