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Alternative splicing in disease genes

Research Project

Project/Area Number 18590318
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeSingle-year Grants
Section一般
Research Field Human genetics
Research InstitutionNational Research Institute for Child Health and Development

Principal Investigator

YAMADA Masao  National Research Institute for Child Health and Development, National Research Insutitution for Child Health and Development Department of Genetics, Director of Department (40124218)

Project Period (FY) 2006 – 2007
Project Status Completed (Fiscal Year 2007)
Budget Amount *help
¥4,010,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥510,000)
Fiscal Year 2007: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Fiscal Year 2006: ¥1,800,000 (Direct Cost: ¥1,800,000)
Keywordsgene / genome / regulation of expression / biotechnology / proreome
Research Abstract

Alternative splicing (AltSp) of pre-mRNA is an important regulatory mechanism for quantitative control of gene expression and also for generating diverse protein species. The latter is now highlighted as the human genome sequencing project has revealed a limited number of genes (20,000-25,000) in the genome, which is far less than those expected for functional complexity. Studies on AltSp have focused on cassette-type (skipping) exons, however, we and others recently revealed widespread occurrence of another type of alternative splicing where the splice acceptor or donor site is selected between adjacent two. This type of AltSp makes a subtler difference, like 3 nucleotides in mRNA and a single amino acid residue in the protein product, thus we call it as "subtle alternative splicing". We have experimentally measured the ratio of the mRNA isoforms in more than 500 cases of Subtle AltSp. Our efforts have contributed to the connection between the bioinformatics and experimental fields. N … More ow, databases on the subject appear on internet, and several reports on respective genes suggest a functional significance of the isoforms.
It has been well known a considerable fraction of point mutations occurred in patients causes aberrant splicing. In some cases, a mutation near the canonical splice site abolishes the splice event using the site, and generates an aberrant splice product using a nearby cryptic site. With experiences with subtle AltSp, we assume that such aberrant splicing may be a consequence of competition between the nearby two sites, the canonical site modulated with the mutation and the cryptic site. Although many sites modulated with the mutation may loose competence as the site, other sites may retain some potential despite the mutation. We experimentally generated such sequences based on our previous results and tested the availability as the splice site. Several site sequences that were not used in the patient were indeed used when the cryptic site was further modified. This result suggests that the aberrant splicing in patients may be corrected once the cryptic splice site is modified. We have demonstrated that this indeed works by the use of RNA technology in experimental systems. Less

Report

(3 results)
  • 2007 Annual Research Report   Final Research Report Summary
  • 2006 Annual Research Report
  • Research Products

    (35 results)

All 2007 2006 Other

All Journal Article (9 results) (of which Peer Reviewed: 5 results) Presentation (24 results) Remarks (2 results)

  • [Journal Article] High-density oligonucleotide array with sub-kilobase resolution reveals breakpoint information of submicroscopic deletion in nevoid basal cell carcinoma syndrome.2007

    • Author(s)
      Fujii, K., et. al.
    • Journal Title

      Human Genetics 122

      Pages: 459-466

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
    • Peer Reviewed
  • [Journal Article] U7 snRNA-mediated correction of aberrant splicing caused by activation of cryptic splice sites.2007

    • Author(s)
      Uchikawa, H., et. al.
    • Journal Title

      Journal of Human Genetics 52

      Pages: 891-897

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
    • Peer Reviewed
  • [Journal Article] High-density oligonucleotide array with sub-kilobase resolution reveals breakpoint information of submicroscopic deletions in nevoid basal cell carcinoma syndrome.2007

    • Author(s)
      Fujii, K., et. al.
    • Journal Title

      Hum Genet. 122(5)

      Pages: 459-466

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Journal Article] U7 snRNA-mediated correction of aberrant splicing caused by activation of cryptic splice sites.2007

    • Author(s)
      Uchikawa, H., et. al.
    • Journal Title

      J Hum Genet. 52(11)

      Pages: 891-897

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Journal Article] High-density oligonucleotide array with sub-kilobase resolution reveals breakpointinformation of submicroscopic deletions in nevoid basal cell carcinoma syndrome2007

    • Author(s)
      Fujii K, et. al.
    • Journal Title

      Human Genetics 122

      Pages: 459-466

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] U7 snRNA-mediated correction of aberrant splicing caused by activation of crypticsplice sites2007

    • Author(s)
      Uchikawa H, et. al.
    • Journal Title

      Journal of Human Genetics 52

      Pages: 891-897

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Brain-and heart-specific Patched-1 containing exon 12b is a dominant negative isoform and is expressed in medulloblastomas.2006

    • Author(s)
      Uchikawa, H., et. al.
    • Journal Title

      Biochemical and Biophysical Research Communications 349

      Pages: 277-283

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
    • Peer Reviewed
  • [Journal Article] Brain- and heart-specific Patched-1 containing exon 12b is a dominant negative isoform and is expressed in medulloblastomas.2006

    • Author(s)
      Uchikawa, H., et. al.
    • Journal Title

      Biochem Biophys Res Commun. 349(1)

      Pages: 277-283

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Journal Article] Brain- and heart-specific Patched-l containing exon 12b is a dominant negative isoform and is expressed in medulloblastomas.2006

    • Author(s)
      Uchikawa, H., et al.
    • Journal Title

      Biochem Biophys Res Commun 349(1)

      Pages: 277-283

    • Related Report
      2006 Annual Research Report
  • [Presentation] 潜在性スプライス供与部位を標的とした改変U7 snRNAによる異常スプライシングの是正2007

    • Author(s)
      内川英紀, 他
    • Organizer
      第30回日本分子生物学会年会・第80回日本生化学会大会 合同大会(ワークショップ)
    • Place of Presentation
      横浜
    • Year and Date
      2007-12-14
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] 潜在性スプライス供与部位を標的とした改変U7 snRNAにる異常スプライシングの是正2007

    • Author(s)
      内川 英紀, 他
    • Organizer
      第30回日本分子生物学会年会・第80回日本生化学会大会合同大会(ワークショップ)
    • Place of Presentation
      横浜
    • Year and Date
      2007-12-14
    • Related Report
      2007 Annual Research Report
  • [Presentation] 高密度オリゴヌクレオチドマイクロアレイを用いた遺伝子欠損の解析と切断点の迅速決定2007

    • Author(s)
      宮下俊之, 他
    • Organizer
      第30回日本分子生物学会年会 第80回日本生化学会大会 合同大会
    • Place of Presentation
      横浜
    • Year and Date
      2007-12-13
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] 高密度オリゴヌクレオチドマイクロアレイを用いた遺伝子欠損の解析と切断点の迅速決定2007

    • Author(s)
      宮下 俊之, 他
    • Organizer
      第30回日本分子生物学会年会第80回日本生化学会大会合同大会
    • Place of Presentation
      横浜
    • Year and Date
      2007-12-13
    • Related Report
      2007 Annual Research Report
  • [Presentation] PAX転写遺伝子群の転写調節相互作用2007

    • Author(s)
      田所惠子, 他
    • Organizer
      第30回日本分子生物学会年会 第80回日本生化学会大会 合同大会
    • Place of Presentation
      横浜
    • Year and Date
      2007-12-12
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] PAX転写遺伝子群の転写調節相互作用2007

    • Author(s)
      田所 恵子, 他
    • Organizer
      第30回日本分子生物学会年会第80回日本生化学会大会合同大会
    • Place of Presentation
      横浜
    • Year and Date
      2007-12-12
    • Related Report
      2007 Annual Research Report
  • [Presentation] 母斑基底細胞癌症候群における高解像度マイクロアレイを用いた遺伝子欠損の詳細な解析2007

    • Author(s)
      宮下俊之, 他
    • Organizer
      第66回日本癌学会総会(ワークショップ)
    • Place of Presentation
      横浜
    • Year and Date
      2007-10-04
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Mutations in the PTCHI in Japanese nevoid basal cell carcinoma syndrome patients2007

    • Author(s)
      藤井克則, 他
    • Organizer
      第66回日本癌学会総会(English Workshop)
    • Place of Presentation
      横浜
    • Year and Date
      2007-10-04
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] PAX転写遺伝子群とWTIの相互転写制御2007

    • Author(s)
      田所惠子, 他
    • Organizer
      第66回日本癌学会総会
    • Place of Presentation
      横浜
    • Year and Date
      2007-10-04
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] 母斑基底細胞癌症候群における高解像度マイククロアレイを用いた遺伝子欠損の詳細な解析2007

    • Author(s)
      宮下 俊之, 他
    • Organizer
      第66回日本癌学会総会(ワークショップ)
    • Place of Presentation
      横浜
    • Year and Date
      2007-10-04
    • Related Report
      2007 Annual Research Report
  • [Presentation] Mutations in the PTCII1 in Japanese nevoid basal cell carcinoma syndrome patients2007

    • Author(s)
      藤井 克則, 他
    • Organizer
      第66回日本癌学会総会(English Wbrkshop)
    • Place of Presentation
      横浜
    • Year and Date
      2007-10-04
    • Related Report
      2007 Annual Research Report
  • [Presentation] PAX転写遺伝子群とWT1の相互転写制御2007

    • Author(s)
      田所 恵子, 他
    • Organizer
      第66回日本癌学会総会
    • Place of Presentation
      横浜
    • Year and Date
      2007-10-04
    • Related Report
      2007 Annual Research Report
  • [Presentation] Identification and characterization of the novel human and mouse patched-1 isoform containing exon 12b.2006

    • Author(s)
      Uchikawa, H., et. al.
    • Organizer
      An AACR Special Conference in Cancer Research;Cancer Susceptibility and Cancer Susceptibility Syndromes
    • Place of Presentation
      Maui,USA
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Detecting tissue-specific alternative splicing and disease-associated aberrant splicing of the PTCH gene with exon junction microarrays.2006

    • Author(s)
      Nagao, K., et. al.
    • Organizer
      An AACR Special Conference in Cancer Research;Cancer Susceptibility and Cancer Susceptibility Syndromes
    • Place of Presentation
      Maui,USA
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Molecular structure and function of liver alkaline phosphatase inducing factor isolated from ascites fluid of mice bearing Ehrlich ascites tumor.2006

    • Author(s)
      Okada, M., et. al.
    • Organizer
      20th IUBMB International Congress of Biochemistry and Molecular Biology
    • Place of Presentation
      Kyoto
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Modification of the Patched-1 protein by ubiquitin.2006

    • Author(s)
      Nagao, K., et. al.
    • Organizer
      20th IUBMB International Congress of Biochemistry and Molecular Biology
    • Place of Presentation
      Kyoto
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Novel brain-and heart-specific patched-1 isoform containing exon 12b has a dominant negative effect on the wild type patched-1.2006

    • Author(s)
      Uchikawa, H., et. al.
    • Organizer
      20th IUBMB International Congress of Biochemistry and Molecular Biology
    • Place of Presentation
      Kyoto
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] The dominant negative isoform of patched-1 containing exon 12b generated by alternative splicing.2006

    • Author(s)
      Miyashita, T., et. al.
    • Organizer
      EMBO Workshop on Hedgehog-Gli Signaling in Cancer and Stem Cells
    • Place of Presentation
      Rome,Italy
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] PAX転写遺伝子群とWTIの相互転写制御2006

    • Author(s)
      田所惠子, 他
    • Organizer
      第65回日本癌学会学術総会
    • Place of Presentation
      横浜
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Identification and characterization of the novel human and mouse patched-1 isoform containing exon 12b.2006

    • Author(s)
      Uchikawa, H., et. al.
    • Organizer
      An AACR Special Conference in Cancer Research ; Cancer Susceptibility and Cancer Susceptibility
    • Place of Presentation
      Maui, USA
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Detecting tissue-specific alternative splicing and disease-associated aberrant splicing of the PTCH gene with exon junction microarrays.2006

    • Author(s)
      Nagao, K., et. al.
    • Organizer
      An AACR Special Conference in Cancer Research ; Cancer Susceptibility and Cancer Susceptibility
    • Place of Presentation
      Maui, USA
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Moleculai structure and function of liver alkaline phosphatase inducing factor isolated feom ascites fluid of mice bearing Ehrlich ascites tumor.2006

    • Author(s)
      Okada, M., et. al.
    • Organizer
      20th IUBMB International Congress of Biochemistry and Molecular Biology
    • Place of Presentation
      Kyoto
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Novel brain- and heart specific patched-1 isoform containing exon 12b has a dominant negative effect on the wild type patched-1.2006

    • Author(s)
      Uchikawa, H., et. al.
    • Organizer
      20th IUBMB International Congress of Biochemistry and Molecular Biology
    • Place of Presentation
      Kyoto
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] The dominant negative isoform of patched-1 containing exon 12b generated by alternative splicing.2006

    • Author(s)
      Miyashita, T., et. al.
    • Organizer
      EMBO Workshop on Hedgehog-Gli Signaling in Cancer and Stem Cells
    • Place of Presentation
      Rome, Italy
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Remarks] 「研究成果報告書概要(和文)」より

    • URL

      http://www.nch.go.jp/genetics/index.htm

    • Related Report
      2007 Final Research Report Summary
  • [Remarks]

    • URL

      http://www.nch.go.jp/genetics/index.htm

    • Related Report
      2007 Annual Research Report

URL: 

Published: 2006-04-01   Modified: 2016-04-21  

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