Features of Arabidopsis Genes and Genome Discovered using Full-length cDNAs
| العنوان: | Features of Arabidopsis Genes and Genome Discovered using Full-length cDNAs |
|---|---|
| المؤلفون: | Tatiana V. Tatarinova, Kenneth A. Feldmann, Richard Flavell, Vyacheslav Brover, Nickolai Alexandrov, Maxim Troukhan |
| المصدر: | Plant Molecular Biology. 60:69-85 |
| بيانات النشر: | Springer Science and Business Media LLC, 2006. |
| سنة النشر: | 2006 |
| مصطلحات موضوعية: | DNA, Complementary, DNA, Plant, Gene prediction, Arabidopsis, Plant Science, Biology, Genes, Plant, Genome, Exon, Gene Expression Regulation, Plant, Genetics, Gene, Base Sequence, Gene Expression Profiling, Alternative splicing, Intron, Exons, General Medicine, Genome project, Introns, Alternative Splicing, DNA, Intergenic, Transcription Initiation Site, Agronomy and Crop Science, Genome, Plant, Reference genome |
| الوصف: | Arabidopsis is currently the reference genome for higher plants. A new, more detailed statistical analysis of Arabidopsis gene structure is presented including intron and exon lengths, intergenic distances, features of promoters, and variant 5'-ends of mRNAs transcribed from the same transcription unit. We also provide a statistical characterization of Arabidopsis transcripts in terms of their size, UTR lengths, 3'-end cleavage sites, splicing variants, and coding potential. These analyses were facilitated by scrutiny of our collection of sequenced full-length cDNAs and much larger collection of 5'-ESTs, together with another set of full-length cDNAs from Salk/Stanford/Plant Gene Expression Center/RIKEN. Examples of alternative splicing are observed for transcripts from 7% of the genes and many of these genes display multiple spliced isoforms. Most splicing variants lie in non-coding regions of the transcripts. Non-canonical splice sites constitute less than 1% of all splice sites. Genes with fewer than four introns display reduced average mRNA levels. Putative alternative transcription start sites were observed in 30% of highly expressed genes and in more than 50% of the genes with low expression. Transcription start sites correlate remarkably well with a CG skew peak in the DNA sequences. The intergenic distances vary considerably, those where genes are transcribed towards one another being significantly shorter. New transcripts, missing in the current TIGR genome annotation and ESTs that are non-coding, including those antisense to known genes, are derived and cataloged in the Supplementary Material. They identify 148 new loci in the Arabidopsis genome. The conclusions drawn provide a better understanding of the Arabidopsis genome and how the gene transcripts are processed. The results also allow better predictions to be made for, as yet, poorly defined genes and provide a reference for comparisons with other plant genomes whose complete sequences are currently being determined. Some comparisons with rice are included in this paper. |
| تدمد: | 1573-5028 0167-4412 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::05ee9c7345a8f805bb87896e01998b8e https://doi.org/10.1007/s11103-005-2564-9 |
| حقوق: | CLOSED |
| رقم الأكسشن: | edsair.doi.dedup.....05ee9c7345a8f805bb87896e01998b8e |
| قاعدة البيانات: | OpenAIRE |
Find this article in full text from Springer Verlag. | تدمد: | 15735028 01674412 |
|---|