秀丽隐杆线虫剪接位点序列的信息含量随内含子长度而变化。
Information content of Caenorhabditis elegans splice site sequences varies with intron length.
作者信息
Fields C
机构信息
Center for Advanced Computing in Molecular and Cellular Biology, New Mexico State University, Las Cruces 88003-0001.
出版信息
Nucleic Acids Res. 1990 Mar 25;18(6):1509-12. doi: 10.1093/nar/18.6.1509.
Abstract
A database of sequences of 139 introns from the nematode Caenorhabditis elegans was analyzed using the information measure of Schneider et al. (1986) J. Mol. Biol. 128: 415-431. Statistically significant information is encoded by at least the first 30 nt and last 20 nt of C. elegans introns. Both the quantity and the distribution of information in the 5' splice site sequences differs between the typical short (length less than 75 nt) and rarer long (length greater than 75 nt) introns, with the 5 sites of long introns containing approximately one bit more information. 3' splice site sequences of long and short C. elegans introns differ significantly in the region between -20 and -10 nt.
摘要
利用施奈德等人（1986年，《分子生物学杂志》128卷：415 - 431页）的信息度量方法，对来自秀丽隐杆线虫的139个内含子序列数据库进行了分析。秀丽隐杆线虫内含子的至少前30个核苷酸和后20个核苷酸编码着具有统计学意义的信息。典型的短内含子（长度小于75个核苷酸）和较少见的长内含子（长度大于75个核苷酸）在5'剪接位点序列中的信息量和信息分布均有所不同，长内含子的5'位点所含信息大约多一位。秀丽隐杆线虫长内含子和短内含子的3'剪接位点序列在 - 20至 - 10个核苷酸区域存在显著差异。
相似文献
1
Information content of Caenorhabditis elegans splice site sequences varies with intron length.秀丽隐杆线虫剪接位点序列的信息含量随内含子长度而变化。
Nucleic Acids Res. 1990 Mar 25;18(6):1509-12. doi: 10.1093/nar/18.6.1509.
2
Functional analysis of an intron 3' splice site in Caenorhabditis elegans.秀丽隐杆线虫内含子3'剪接位点的功能分析
RNA. 1996 Apr;2(4):380-8.
3
Splicing of a C. elegans myosin pre-mRNA in a human nuclear extract.秀丽隐杆线虫肌球蛋白前体信使核糖核酸在人核提取物中的剪接
Nucleic Acids Res. 1990 Jan 11;18(1):143-9. doi: 10.1093/nar/18.1.143.
4
5
Expression of intron-containing C. elegans heat shock genes in mouse cells demonstrates divergence of 3' splice site recognition sequences between nematodes and vertebrates, and an inhibitory effect of heat shock on the mammalian splicing apparatus.含内含子的秀丽隐杆线虫热休克基因在小鼠细胞中的表达表明，线虫和脊椎动物之间3'剪接位点识别序列存在差异，且热休克对哺乳动物剪接机制有抑制作用。
Nucleic Acids Res. 1987 May 11;15(9):3723-41. doi: 10.1093/nar/15.9.3723.
6
The spliceosomal snRNAs of Caenorhabditis elegans.
Nucleic Acids Res. 1990 May 11;18(9):2633-42. doi: 10.1093/nar/18.9.2633.
7
Compensatory relationship between splice sites and exonic splicing signals depending on the length of vertebrate introns.脊椎动物内含子长度依赖性剪接位点与外显子剪接信号之间的补偿关系。
BMC Genomics. 2006 Dec 8;7:311. doi: 10.1186/1471-2164-7-311.
8
Functional analysis of a C. elegans trans-splice acceptor.秀丽隐杆线虫反式剪接受体的功能分析
Nucleic Acids Res. 1993 Feb 25;21(4):913-9. doi: 10.1093/nar/21.4.913.
9
Conversion of a trans-spliced C. elegans gene into a conventional gene by introduction of a splice donor site.通过引入剪接供体位点将剪接的秀丽隐杆线虫基因转化为常规基因。
EMBO J. 1993 Mar;12(3):1249-55. doi: 10.1002/j.1460-2075.1993.tb05766.x.
10
Splicing in Caenorhabditis elegans does not require an AG at the 3' splice acceptor site.秀丽隐杆线虫中的剪接在3'剪接受体位点不需要AG。
Mol Cell Biol. 1993 Jan;13(1):626-37. doi: 10.1128/mcb.13.1.626-637.1993.
引用本文的文献
1
Identification of minimal eukaryotic introns through GeneBase, a user-friendly tool for parsing the NCBI Gene databank.通过GeneBase（一种用于解析NCBI基因数据库的用户友好型工具）鉴定最小真核内含子。
DNA Res. 2015 Dec;22(6):495-503. doi: 10.1093/dnares/dsv028. Epub 2015 Nov 17.
2
RBFOX and PTBP1 proteins regulate the alternative splicing of micro-exons in human brain transcripts.RBFOX和PTBP1蛋白调节人类大脑转录本中微小外显子的可变剪接。
Genome Res. 2015 Jan;25(1):1-13. doi: 10.1101/gr.181990.114.
3
Changes in exon-intron structure during vertebrate evolution affect the splicing pattern of exons.脊椎动物进化过程中外显子-内含子结构的变化影响外显子的剪接模式。
Genome Res. 2012 Jan;22(1):35-50. doi: 10.1101/gr.119834.110. Epub 2011 Oct 5.
4
Conserved elements associated with ribosomal genes and their trans-splice acceptor sites in Caenorhabditis elegans.与秀丽隐杆线虫核糖体基因及其反式剪接受体位点相关的保守元件。
Nucleic Acids Res. 2010 May;38(9):2990-3004. doi: 10.1093/nar/gkq003. Epub 2010 Jan 25.
5
Finding exonic islands in a sea of non-coding sequence: splicing related constraints on protein composition and evolution are common in intron-rich genomes.在非编码序列的海洋中寻找外显子岛：剪接相关的对蛋白质组成和进化的限制在富含内含子的基因组中很常见。
Genome Biol. 2008;9(2):R29. doi: 10.1186/gb-2008-9-2-r29. Epub 2008 Feb 7.
6
Large-scale comparative analysis of splicing signals and their corresponding splicing factors in eukaryotes.真核生物中剪接信号及其相应剪接因子的大规模比较分析。
Genome Res. 2008 Jan;18(1):88-103. doi: 10.1101/gr.6818908. Epub 2007 Nov 21.
7
Gene expression, intron density, and splice site strength in Drosophila and Caenorhabditis.果蝇和秀丽隐杆线虫中的基因表达、内含子密度及剪接位点强度
J Mol Evol. 2007 Sep;65(3):349-57. doi: 10.1007/s00239-007-9015-y. Epub 2007 Sep 1.
8
Comparative analysis of splice site regions by information content.通过信息含量对剪接位点区域进行比较分析。
Genomics Proteomics Bioinformatics. 2006 Nov;4(4):230-7. doi: 10.1016/S1672-0229(07)60003-5.
9
Compensatory relationship between splice sites and exonic splicing signals depending on the length of vertebrate introns.脊椎动物内含子长度依赖性剪接位点与外显子剪接信号之间的补偿关系。
BMC Genomics. 2006 Dec 8;7:311. doi: 10.1186/1471-2164-7-311.
10
DNA sequences shaped by selection for stability.因稳定性选择而形成的DNA序列。
PLoS Genet. 2006 Feb;2(2):e22. doi: 10.1371/journal.pgen.0020022. Epub 2006 Feb 24.
本文引用的文献
1
Comparisons of the complete sequences of two collagen genes from Caenorhabditis elegans.秀丽隐杆线虫两个胶原蛋白基因完整序列的比较。
Cell. 1982 Sep;30(2):599-606. doi: 10.1016/0092-8674(82)90256-2.
2
Protein structural domains in the Caenorhabditis elegans unc-54 myosin heavy chain gene are not separated by introns.秀丽隐杆线虫unc-54肌球蛋白重链基因中的蛋白质结构域未被内含子隔开。
Proc Natl Acad Sci U S A. 1983 Jul;80(14):4253-7. doi: 10.1073/pnas.80.14.4253.
3
A minimal intron length but no specific internal sequence is required for splicing the large rabbit beta-globin intron.剪接大的兔β-珠蛋白内含子时，需要最小内含子长度，但不需要特定的内部序列。
Cell. 1984 Jul;37(3):915-25. doi: 10.1016/0092-8674(84)90426-4.
4
Locus encoding a family of small heat shock genes in Caenorhabditis elegans: two genes duplicated to form a 3.8-kilobase inverted repeat.秀丽隐杆线虫中编码一个小热休克基因家族的基因座：两个基因复制形成一个3.8千碱基的反向重复序列。
Mol Cell Biol. 1985 Jun;5(6):1268-78. doi: 10.1128/mcb.5.6.1268-1278.1985.
5
The nucleotide sequence of a nematode vitellogenin gene.一种线虫卵黄生成素基因的核苷酸序列。
Nucleic Acids Res. 1985 Oct 11;13(19):7129-38. doi: 10.1093/nar/13.19.7129.
6
A catalogue of splice junction and putative branch point sequences from plant introns.植物内含子的剪接连接和假定分支点序列目录。
Nucleic Acids Res. 1986 Dec 22;14(24):9549-59. doi: 10.1093/nar/14.24.9549.
7
A novel calmodulin-like gene from the nematode Caenorhabditis elegans.一种来自秀丽隐杆线虫的新型类钙调蛋白基因。
J Mol Biol. 1986 Aug 5;190(3):281-9. doi: 10.1016/0022-2836(86)90002-1.
8
Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters.调控蛋白对DNA结合位点的选择。统计力学理论及其在操纵子和启动子中的应用。
J Mol Biol. 1987 Feb 20;193(4):723-50. doi: 10.1016/0022-2836(87)90354-8.
9
Expression of intron-containing C. elegans heat shock genes in mouse cells demonstrates divergence of 3' splice site recognition sequences between nematodes and vertebrates, and an inhibitory effect of heat shock on the mammalian splicing apparatus.含内含子的秀丽隐杆线虫热休克基因在小鼠细胞中的表达表明，线虫和脊椎动物之间3'剪接位点识别序列存在差异，且热休克对哺乳动物剪接机制有抑制作用。
Nucleic Acids Res. 1987 May 11;15(9):3723-41. doi: 10.1093/nar/15.9.3723.
10
A trans-spliced leader sequence on actin mRNA in C. elegans.秀丽隐杆线虫肌动蛋白信使核糖核酸上的一个反式剪接前导序列。
Cell. 1987 Jun 19;49(6):753-61. doi: 10.1016/0092-8674(87)90613-1.
Zotero 插件