Analysis of sequence-dependent curvature in matrix attachment regions
Sequence-dependent DNA conformations of matrix attachment regions (MARs) available in a database were calculated using the wedge model, and compared with randomly chosen genes, promoters, enhancers and transposons. The MARs had a longer bent part and higher angle/helical turn than the other regions....
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| Veröffentlicht in: | FEBS letters 2001-02, Vol.489 (2), p.166-170 |
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| container_title | FEBS letters |
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| creator | Yamamura, Jun Nomura, Koji |
| description | Sequence-dependent DNA conformations of matrix attachment regions (MARs) available in a database were calculated using the wedge model, and compared with randomly chosen genes, promoters, enhancers and transposons. The MARs had a longer bent part and higher angle/helical turn than the other regions. It is known that some MAR sequences have A-tracts that cause DNA bending, and we also found many A-tracts in examined MARs. Furthermore, non-random and clustered distribution of A-tracts shown here gave further evidence of the importance of A-tracts for MAR conformations. These results suggest that DNAs of MARs have a characteristic conformation instead of conserved sequence. |
| doi_str_mv | 10.1016/S0014-5793(01)02098-1 |
| format | Article |
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These results suggest that DNAs of MARs have a characteristic conformation instead of conserved sequence.</description><subject>Animals</subject><subject>Base Sequence</subject><subject>Bent DNA</subject><subject>Computer Graphics</subject><subject>DNA - chemistry</subject><subject>DNA - metabolism</subject><subject>DNA curvature</subject><subject>Humans</subject><subject>Matrix attachment region</subject><subject>Molecular Sequence Data</subject><subject>Nuclear Matrix - metabolism</subject><subject>Nucleic Acid Conformation</subject><subject>Software</subject><subject>Wedge model</subject><issn>0014-5793</issn><issn>1873-3468</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2001</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqNkMtOwzAQRS0EgvL4BFBWCBYBT-w4zgoV1AISEgtgbTnOBIzyKHZS6N-TpBUsYTWauXfujA4hx0AvgIK4fKIUeBgnKTujcE4jmsoQtsgEZMJCxoXcJpMfyx7Z9_6d9r2EdJfsAYCII84mZDatdbny1gdNEXj86LA2GOa4wDrHug1M55a67RwGtg4q3Tr7Fei21eatGmSHr7ap_SHZKXTp8WhTD8jLfPZ8cxc-PN7e30wfQsMTBqEWseRURpBKmRUmybiMGJqYI00FBygyVjCOhQahixjRaJ3nMqIsS3mmo4QdkNN17sI1_au-VZX1BstS19h0XiVUMAFS9MZ4bTSu8d5hoRbOVtqtFFA18FMjPzXAURTUyE9Bv3eyOdBlFea_WxtgveFubfi0Ja7-l6rms-toVAaBwjgebl2to7AntrTolDd2wJ9bh6ZVeWP_-PYbpbiTyQ</recordid><startdate>20010202</startdate><enddate>20010202</enddate><creator>Yamamura, Jun</creator><creator>Nomura, Koji</creator><general>Elsevier B.V</general><scope>6I.</scope><scope>AAFTH</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>7X8</scope></search><sort><creationdate>20010202</creationdate><title>Analysis of sequence-dependent curvature in matrix attachment regions</title><author>Yamamura, Jun ; Nomura, Koji</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4731-a65840821988bfc7b4823ec54e096411fb3f34efa16af5eecaadd8203b94ba273</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2001</creationdate><topic>Animals</topic><topic>Base Sequence</topic><topic>Bent DNA</topic><topic>Computer Graphics</topic><topic>DNA - chemistry</topic><topic>DNA - metabolism</topic><topic>DNA curvature</topic><topic>Humans</topic><topic>Matrix attachment region</topic><topic>Molecular Sequence Data</topic><topic>Nuclear Matrix - metabolism</topic><topic>Nucleic Acid Conformation</topic><topic>Software</topic><topic>Wedge model</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Yamamura, Jun</creatorcontrib><creatorcontrib>Nomura, Koji</creatorcontrib><collection>ScienceDirect Open Access Titles</collection><collection>Elsevier:ScienceDirect:Open Access</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>FEBS letters</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yamamura, Jun</au><au>Nomura, Koji</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Analysis of sequence-dependent curvature in matrix attachment regions</atitle><jtitle>FEBS letters</jtitle><addtitle>FEBS Lett</addtitle><date>2001-02-02</date><risdate>2001</risdate><volume>489</volume><issue>2</issue><spage>166</spage><epage>170</epage><pages>166-170</pages><issn>0014-5793</issn><eissn>1873-3468</eissn><abstract>Sequence-dependent DNA conformations of matrix attachment regions (MARs) available in a database were calculated using the wedge model, and compared with randomly chosen genes, promoters, enhancers and transposons. 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| ispartof | FEBS letters, 2001-02, Vol.489 (2), p.166-170 |
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| language | eng |
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| source | MEDLINE; Wiley Journals; Elsevier ScienceDirect Journals Complete; EZB-FREE-00999 freely available EZB journals; Wiley Online Library (Open Access Collection); Alma/SFX Local Collection |
| subjects | Animals Base Sequence Bent DNA Computer Graphics DNA - chemistry DNA - metabolism DNA curvature Humans Matrix attachment region Molecular Sequence Data Nuclear Matrix - metabolism Nucleic Acid Conformation Software Wedge model |
| title | Analysis of sequence-dependent curvature in matrix attachment regions |
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