Sequence and comparative analysis of the mouse 1-megabase region orthologous to the human 11p15 imprinted domain
- PMID: 11076855
- DOI: 10.1101/gr.161800
Sequence and comparative analysis of the mouse 1-megabase region orthologous to the human 11p15 imprinted domain
Erratum in
- Genome Res 2001 Feb;11(2):308
Abstract
A major barrier to conceptual advances in understanding the mechanisms and regulation of imprinting of a genomic region is our relatively poor understanding of the overall organization of genes and of the potentially important cis-acting regulatory sequences that lie in the nonexonic segments that make up 97% of the genome. Interspecies sequence comparison offers an effective approach to identify sequence from conserved functional elements. In this article we describe the successful use of this approach in comparing a approximately 1-Mb imprinted genomic domain on mouse chromosome 7 to its orthologous region on human 11p15.5. Within the region, we identified 112 exons of known genes as well as a novel gene identified uniquely in the mouse region, termed Msuit, that was found to be imprinted. In addition to these coding elements, we identified 33 CpG islands and 49 orthologous nonexonic, nonisland sequences that met our criteria as being conserved, and making up 4.1% of the total sequence. These conserved noncoding sequence elements were generally clustered near imprinted genes and the majority were between Igf2 and H19 or within Kvlqt1. Finally, the location of CpG islands provided evidence that suggested a two-island rule for imprinted genes. This study provides the first global view of the architecture of an entire imprinted domain and provides candidate sequence elements for subsequent functional analyses.
Similar articles
-
Structural and functional analysis of a 0.5-Mb chicken region orthologous to the imprinted mammalian Ascl2/Mash2-Igf2-H19 region.Genome Res. 2005 Jan;15(1):154-65. doi: 10.1101/gr.2609605. Epub 2004 Dec 8. Genome Res. 2005. PMID: 15590938 Free PMC article.
-
Sequence and functional comparison in the Beckwith-Wiedemann region: implications for a novel imprinting centre and extended imprinting.Hum Mol Genet. 2000 Nov 1;9(18):2691-706. doi: 10.1093/hmg/9.18.2691. Hum Mol Genet. 2000. PMID: 11063728
-
Multipoint analysis of human chromosome 11p15/mouse distal chromosome 7: inclusion of H19/IGF2 in the minimal WT2 region, gene specificity of H19 silencing in Wilms' tumorigenesis and methylation hyper-dependence of H19 imprinting.Hum Mol Genet. 1999 Jul;8(7):1337-52. doi: 10.1093/hmg/8.7.1337. Hum Mol Genet. 1999. PMID: 10369881
-
Genomic imprinting and chromatin insulation in Beckwith-Wiedemann syndrome.Mol Biotechnol. 1999 Apr;11(2):159-73. doi: 10.1007/BF02915809. Mol Biotechnol. 1999. PMID: 10464770 Review.
-
Imprinting: silently crossing the boundary.Genome Biol. 2000;1(5):REVIEWS1028. doi: 10.1186/gb-2000-1-5-reviews1028. Epub 2000 Nov 10. Genome Biol. 2000. PMID: 11178262 Free PMC article. Review.
Cited by
-
Identification of the porcine IG-DMR and abnormal imprinting of DLK1-DIO3 in cloned pigs.Front Cell Dev Biol. 2022 Aug 10;10:964045. doi: 10.3389/fcell.2022.964045. eCollection 2022. Front Cell Dev Biol. 2022. PMID: 36036009 Free PMC article.
-
Pervasive polymorphic imprinted methylation in the human placenta.Genome Res. 2016 Jun;26(6):756-67. doi: 10.1101/gr.196139.115. Epub 2016 Jan 14. Genome Res. 2016. PMID: 26769960 Free PMC article.
-
What does genetics tell us about imprinting and the placenta connection?Cell Mol Life Sci. 2015 Jan;72(1):51-72. doi: 10.1007/s00018-014-1714-0. Epub 2014 Sep 7. Cell Mol Life Sci. 2015. PMID: 25194419 Free PMC article. Review.
-
The human imprintome: regulatory mechanisms, methods of ascertainment, and roles in disease susceptibility.ILAR J. 2012;53(3-4):341-58. doi: 10.1093/ilar.53.3-4.341. ILAR J. 2012. PMID: 23744971 Free PMC article. Review.
-
Chromatin structure, epigenetic mechanisms and long-range interactions in the human insulin locus.Diabetes Obes Metab. 2012 Oct;14 Suppl 3(Suppl 3):1-11. doi: 10.1111/j.1463-1326.2012.01645.x. Diabetes Obes Metab. 2012. PMID: 22928559 Free PMC article. Review.
Publication types
MeSH terms
Substances
Associated data
- Actions
- Actions
- Actions
- Actions
- Actions
- Actions
- Actions
- Actions
- Actions
Grants and funding
LinkOut - more resources
Full Text Sources
Other Literature Sources
Molecular Biology Databases
Miscellaneous