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dc.contributor.authorEngstrom, Par G
dc.contributor.authorSuzuki, Harukazu
dc.contributor.authorNinomiya, Noriko
dc.contributor.authorAkalin, Altuna
dc.contributor.authorSessa, Luca
dc.contributor.authorLavorgna, Giovanni
dc.contributor.authorBrozzi, Alessandro
dc.contributor.authorLuzi, Lucilla
dc.contributor.authorTan, Sin Lam
dc.contributor.authorYang, Liang
dc.contributor.authorKunarso, Galih
dc.contributor.authorng, Edwin Lian-Cho Ng
dc.contributor.authorBatalov, Serge
dc.contributor.authorWahlestedt, Claes
dc.contributor.authorKai, Chikatoshi
dc.contributor.authorKawai, Jun
dc.contributor.authorCarninci, Piero
dc.contributor.authorHayashizaki, Yoshihide
dc.contributor.authorWells, Christine
dc.contributor.authorBajic, Vladimir B
dc.contributor.authorOrlando, Valerio
dc.contributor.authorReid, James F
dc.contributor.authorLenhard, Boris
dc.contributor.authorLipovich, Leonard
dc.date.accessioned2017-05-03T15:00:58Z
dc.date.available2017-05-03T15:00:58Z
dc.date.issued2006
dc.date.modified2008-12-18T06:56:16Z
dc.identifier.issn1553-7404
dc.identifier.doi10.1371/journal.pgen.0020047
dc.identifier.urihttp://hdl.handle.net/10072/14483
dc.description.abstractMammalian genomes harbor a larger than expected number of complex loci, in which multiple genes are coupled by shared transcribed regions in antisense orientation and/or by bidirectional core promoters. To determine the incidence, functional significance, and evolutionary context of mammalian complex loci, we identified and characterized 5,248 cis-antisense pairs, 1,638 bidirectional promoters, and 1,153 chains of multiple cis-antisense and/or bidirectionally promoted pairs from 36,606 mouse transcriptional units (TUs), along with 6,141 cis-antisense pairs, 2,113 bidirectional promoters, and 1,480 chains from 42,887 human TUs. In both human and mouse, 25% of TUs resided in cis-antisense pairs, only 17% of which were conserved between the two organisms, indicating frequent species specificity of antisense gene arrangements. A sampling approach indicated that over 40% of all TUs might actually be in cis-antisense pairs, and that only a minority of these arrangements are likely to be conserved between human and mouse. Bidirectional promoters were characterized by variable transcriptional start sites and an identifiable midpoint at which overall sequence composition changed strand and the direction of transcriptional initiation switched. In microarray data covering a wide range of mouse tissues, genes in cis-antisense and bidirectionally promoted arrangement showed a higher probability of being coordinately expressed than random pairs of genes. In a case study on homeotic loci, we observed extensive transcription of nonconserved sequences on the noncoding strand, implying that the presence rather than the sequence of these transcripts is of functional importance. Complex loci are ubiquitous, host numerous nonconserved gene structures and lineage-specific exonification events, and may have a cis-regulatory impact on the member genes.
dc.description.peerreviewedYes
dc.description.publicationstatusYes
dc.format.extent529703 bytes
dc.format.extent85302 bytes
dc.format.mimetypeapplication/pdf
dc.format.mimetypetext/plain
dc.languageEnglish
dc.language.isoeng
dc.publisherPublic Library of Science
dc.publisher.placeUSA
dc.publisher.urihttp://genetics.plosjournals.org/
dc.relation.ispartofstudentpublicationN
dc.relation.ispartofpagefrom0564
dc.relation.ispartofpageto0577
dc.relation.ispartofissue4
dc.relation.ispartofjournalPLOS Genetics
dc.relation.ispartofvolume2
dc.rights.retentionY
dc.subject.fieldofresearchGenetics
dc.subject.fieldofresearchcode3105
dc.titleComplex Loci in Human and Mouse Genomes
dc.typeJournal article
dc.type.descriptionC1 - Articles
dc.type.codeC - Journal Articles
dcterms.licensehttp://www.plos.org/journals/license.html
gro.rights.copyright© 2006 Engstrom et al. This is an Open Access article distributed under the terms of the Creative Commons Attribution License CCAL. (http://www.plos.org/journals/license.html)
gro.date.issued2006
gro.hasfulltextFull Text
gro.griffith.authorWells, Christine


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