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    ASIA unversity > 資訊學院 > 資訊工程學系 > 期刊論文 >  Item 310904400/18806


    Please use this identifier to cite or link to this item: http://asiair.asia.edu.tw/ir/handle/310904400/18806


    Title: Detection of SNPs between Tainung 67 and Nipponbare rice cultivars
    Authors: 呂威甫;Lu, Wei-Fu
    Contributors: 資訊工程學系
    Keywords: Expressed sequence tag (EST);Nipponbare;RAP-DB;Rice;Single-nucleotide polymorphisms (SNP);TNG67.
    Date: 2007
    Issue Date: 2012-11-26 13:58:51 (UTC+8)
    Abstract: Single nucleotide polymorphisms (SNPs) are known as the most detectable variations among
    related genomes. We estimated the SNPs between Tainung 67 (TNG67), an elite cultivar of rice (Oryza sativa)
    in Taiwan, and Nipponbare, the cultivar used for rice genome sequencing by the international consortium.
    More than 6,000 expressed sequence tag (EST) sequences from developing panicles of TNG67 were compared
    with the annotated gene sequences of Nipponbare. The estimated SNP rate is about 0.3% to 0.4% between the
    two cultivars, with most of the insertions or deletions (indels) occurring on the 5´ or 3´ untranslated regions
    (UTRs). The rate of transition substitutions on the 3´ UTR and the third codon positions is higher than that
    of transversions but lower on 5´ UTR and first codon positions. The synonymous (Ks) and non-synonymous
    (Ka) substitution distances are also calculated, and most of the Ka/Ks ratios are less than 1. Because the
    SNP density is higher than that of other traditional markers, detection of SNPs in this report with subsequent
    development of markers will allow genetic mapping and positional cloning between TNG67 and Nipponbare.
    Relation: Botanical Studies
    Appears in Collections:[資訊工程學系] 期刊論文

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