GABI-Kat SimpleSearch: an Arabidopsis thaliana T-DNA mutant database with detailed information for confirmed insertions.
GABI-Kat SimpleSearch: an Arabidopsis thaliana T-DNA mutant database with detailed information for confirmed insertions.
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DOI：
10.1093/nar/gkl753
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发表时间：
2007-01
影响因子：
14.9
通讯作者：
Weisshaar, Bernd
中科院分区：
文献类型：
--
作者：
Li, Yong;Rosso, Mario G.;Viehoever, Prisca;Weisshaar, Bernd
插入突变技术，特别是T-DNA插入突变技术在模式植物拟南芥基因功能研究中发挥着重要作用。GABI-Kat SimpleSearch（）是GABI-Kat项目生成的基于侧翼序列标签（FST）的T-DNA插入突变体数据库。目前，该数据库包含来自164 000个品系的>108 000个定位的FST，覆盖了所有注释的拟南芥蛋白编码基因的64%。网络界面允许通过基因代码、关键词、系标识符、FST的GenBank登录号以及通过BLAST来搜索相关插入。基因或FST周围的基因组区域的图形显示帮助用户选择他们感兴趣的插入线。在产生原始FST的植物的后代中确认了约3500个插入，并且这些品系的种子可从诺丁汉拟南芥原种中心获得。该数据库现在还包含其他信息，如分离数据、基因特异性引物和确认序列。这些信息不仅可以帮助用户评估突变株系的有用性，而且还涵盖了插入等位基因的大部分分子表征。
Insertional mutagenesis approaches, especially by T-DNA, play important roles in gene function studies of the model plant Arabidopsis thaliana. GABI-Kat SimpleSearch () is a Flanking Sequence Tag (FST)-based database for T-DNA insertion mutants generated by the GABI-Kat project. Currently, the database contains >108 000 mapped FSTs from ∼64 000 lines which cover 64% of all annotated A.thaliana protein-coding genes. The web interface allows searching for relevant insertions by gene code, keyword, line identifier, GenBank accession number of the FST, and also by BLAST. A graphic display of the genome region around the gene or the FST assists users to select insertion lines of their interests. About 3500 insertions were confirmed in the offspring of the plant from which the original FST was generated, and the seeds of these lines are available from the Nottingham Arabidopsis Stock Centre. The database now also contains additional information such as segregation data, gene-specific primers and confirmation sequences. This information not only helps users to evaluate the usefulness of the mutant lines, but also covers a big part of the molecular characterization of the insertion alleles.
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