拟南芥和水稻常用网站汇总

Arabidopsis

http://affymetrix.arabidopsis.info/

是一个拟南芥蕊片网站，可查到别人做过的蕊片数据结果，很有参考价值。

http://signal.salk.edu/cgi-bin/tdnaexpress

是拟南芥突变体网站，有所有拟南芥基因的Ｔ－ＤＮＡ插入突变体，可直接邮购突变体种子，ＳＡＬＫ公司的突变体一个５美元，法国凡尔赛中心很贵要几百欧元。

网站:http://www.arabidopsis.org/

比较权威的拟南芥网站

http://www.plantgdb.org/AtGDB/

http://signal.salk.edu/

http://www.tigr.org/tdb/e2k1/ath1/

http://www.softberry.com

查motif很好

Rice:

TIGR Rice Genome Annotation

http://www.tigr.org/tdb/e2k1/osa1/overview.shtml

TIGR has been funded by the National Science Foundation to annotate the rice genome. This four year award began in January 2004. A summary of the project and its goals is listed below. As the project develops, we will expand our web pages to provide the community with more information on the deliverables and timelines for annotating the rice genome.

Rice is model species for the monocotyledonous plants and the cereals which are the greatest source of food for the world's population. While rice genome sequence is available through multiple sequencing projects, high quality, uniform annotation has not yet been generated. Without annotation, researchers will independently annotate regions of interest and be unable to efficiently data-mine the rice genome for relevant features.

The objectives of this project are to provide high quality annotation for the rice genome. We will refine and update the gene models for the est. 40,000-60,000 total rice genes, provide standardized annotation for each model, link each model to functional annotation including expression data, gene ontologies, and tagged lines.

We will provide a resource to extend the annotation in the rice genome to other plant species by providing comparative alignments to other plant species. We will provide training in bioinformatics to 60 plant scientists, leveraging our informatic efforts to a broader range of scientists. We will develop an agricultural genomics lecture and teaching module for educating local high school students and teachers on the significance of agricultural genomics.

Introduction to Rice Genome Research Program (RGP) at STAFF Institute in Tsukuba, Japan.

http://rgp.dna.affrc.go.jp/

The Rice Genome Research Program (RGP) is an integral part of the Japanese Ministry of Agriculture, Forestry and Fisheries (MAFF) Genome Research Project. It is jointly coordinated by the National Institute of Agrobiological Sciences (NIAS), a government research institute under MAFF and the Society for Techno-innovation of Agriculture, Forestry and Fisheries (STAFF), a semi-private research organization managed and supported by MAFF and a consortium of some twenty Japanese companies. The research is funded with yearly grants from MAFF and additional funds from the Japan Racing Association (JRA).

The program started in October 1991 and the first phase continued through 1997 resulting in the establishment of some of the basic tools of rice genome analysis. Reorganized into a national project in 1998, RGP now aims to completely sequence the entire rice genome and subsequently to pursue integrated goals in functional genomics, genome informatics and applied genomics. It is now the leading member of the International Rice Genome Sequencing Project (IRGSP), a consortium of ten countries sharing the sequencing of the 12 rice chromosomes.

Oryzabase

http://www.shigen.nig.ac.jp/rice/oryzabase/top/top.jsp

The oryzabase is a comprehensive rice science database established in 2000 by rice researcher's committee in Japan. The database is originally aimed to gather as much knowledge as possible ranging from classical rice genetics to recent genomics and from fundamental information to hot topics. The oryzabase consists of five parts, (1) genetic resource stock information, (2) gene dictionary, (3) chromosome maps, (4) mutant images, and (5) fundamental knowledge of rice science. We are planning to do more extensive cross-referencing of oryzabase to the major DNA sequence database, literature database and other plant databases in order to provide the wealth of information to rice researchers. We are calling for additional mutants and mapped gene information to incorporate into the oryzabase. Newly identified mutants and mapped trait genes published in the scientific journals will be welcome to integrate into the oryzabase maps.

Gramene: A Comparative Mapping Resource for Grains

http://www.gramene.org/

Gramene is a curated, open-source, Web-accessible data resource for comparative genome analysis in the grasses. Our goal is to facilitate the study of cross-species homology relationships using information derived from public projects involved in genomic and EST sequencing, protein structure and function analysis, genetic and physical mapping, interpretation of biochemical pathways, gene and QTL localization and descriptions of phenotypic characters and mutations.

http://www.ncgr.ac.cn/index.html

中国科学院国家基因研究中心成立于1992年, 由中华人民共和国科学技术部、中国科学院、上海市人民政府共同支持建立。中心从1993年就开始以中国主要栽培品种籼稻广陆矮4号（ oryza sativa ssp indica cv Guangluai 4）为水稻基因组研究品系，进行基因组研究，并先后取得了一系列学术成果。 1998年, 基因中心作为中国大陆的参与单位，加入由政府和其它公共资金支持的国际水稻粳稻（Oryza sativa ssp japonica）基因组测序计划（International Rice Genome Sequencing Project，IRGSP），承担了第四号染色体的精确测序任务。该项目在国家人类基因组南方研究中心和中科院遗传与发育生物学研究所等单位的协作下顺利完成。基因中心现有研究人员60名左右，其中博士研究生10名。研究部门由五部分组成：DNA测序组、物理图构建组、功能基因研究组、生物信息组和计算机系统组。目前，基因中心已向公共数据库递交了超过5千万碱基的水稻基因组DNA序列数据。今后基因中心将以水稻以及其他动植物和微生物基因组为研究方向，开展功能基因组研究。

研究领域 基因中心目前的研究领域主要集中在水稻的基因组测序、比较基因组分析及功能基因组研究：

水稻结构基因组学 水稻籼粳稻精细物理图的构建 水稻籼粳稻四号染色体的精确序列测定和序列分析 籼粳稻比较基因组学研究

水稻功能基因组学 水稻4号染色体特异DNA芯片的研制及其基因表达谱的绘制 水稻全长cDNA库的构建和序列分析 水稻T－DNA插入突变体库插入位点的序列测定和数据库的构建 水稻重要生物学功能基因的鉴定

生物信息学研究 基因组水平上基因注释相关软件开发及平台建立 生物信息相关数据库构建

http://www.irri.org/

The International Rice Research Institute (IRRI) is an autonomous, nonprofit agricultural research and training organization with offices in more than ten nations. The Institute抯 main goal is to find sustainable ways to improve the well-being of present and future generations of poor rice farmers and consumers while at the same time protecting the environment.

Most of IRRI抯 research is done in cooperation with national agricultural research and development institutions, farming communities, and other organizations of the world抯 rice- producing nations.

IRRI was established in 1960 by the Ford and Rockefeller foundations in cooperation with the government of the Philippines. Its research activities began in 1962 and are now estimated to have touched the lives of almost half the world抯 population.

The Institute抯 research headquarters has laboratories and training facilities on a 252-hectare experimental farm on the main campus of the University of the Philippines Los Bas, about 60 kilometers south of the Philippine capital, Manila. Besides doing rice research, IRRI is also very active in local communities梡roviding educational scholarships, organizing income-generating training activities, and arranging other community projects that will help improve living conditions in the poor communities that neighbor the Institute.

http://rise.genomics.org.cn/rice/index2.jsp

水稻分子标记网站:shenghuan.shtu.edu.cn/genefunction

http://rapdb.dna.affrc.go.jp/Link.html 该页面中有很多水稻链接的网址
下面这两个网址是分析序列的
http://www.cbs.dtu.dk/services/SignalP/
http://www.dna.affrc.go.jp/PLACE/