Identification and Characterization of the Potential Promoter Regions of 1031 Kinds of Human Genes | Zendy

Yutaka Suzuki | Zendy; Tatsuhiko Tsunoda | Zendy; Jun Sese | Zendy; Hirotoshi Taira | Zendy; Junko MizushimaSugano | Zendy; Hiroko Hata | Zendy; Toshio Ota | Zendy; Takao Isogai | Zendy; Toshihiro Tanaka | Zendy; Yusuke Nakamura | Zendy; Akira Suyama | Zendy; Yoshiyuki Sakaki | Zendy; Shinichi Morishita | Zendy; Kousaku Okubo | Zendy; Sumio Sugano | Zendy

AI Assistant Blog Pricing

Home ZAIA Blog

Open Access

Identification and Characterization of the Potential Promoter Regions of 1031 Kinds of Human Genes

Author(s) -

Yutaka Suzuki,

Tatsuhiko Tsunoda,

Jun Sese,

Hirotoshi Taira,

Junko MizushimaSugano,

Hiroko Hata,

Toshio Ota,

Takao Isogai,

Toshihiro Tanaka,

Yusuke Nakamura,

Akira Suyama,

Yoshiyuki Sakaki,

Shinichi Morishita,

Kousaku Okubo,

Sumio Sugano

Publication year - 2001

Publication title -

genome research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.556

H-Index - 297

eISSN - 1549-5469

pISSN - 1088-9051

DOI - 10.1101/gr.164001

Subject(s) - genbank , biology , tata box , gene , promoter , cpg site , genetics , expressed sequence tag , consensus sequence , complementary dna , accession number (library science) , computational biology , microbiology and biotechnology , gene expression , peptide sequence , dna methylation

To understand the mechanism of transcriptional regulation, it is essential to identify and characterize the promoter, which is located proximal to the mRNA start site. To identify the promoters from the large volumes of genomic sequences, we used mRNA start sites determined by a large-scale sequencing of the cDNA libraries constructed by the “oligo-capping” method. We aligned the mRNA start sites with the genomic sequences and retrieved adjacent sequences as potential promoter regions (PPRs) for 1031 genes. The PPR sequences were searched to determine the frequencies of major promoter elements. Among 1031 PPRs, 329 (32%) contained TATA boxes, 872 (85%) contained initiators, 999 (97%) contained GC box, and 663 (64%) contained CAAT box. Furthermore, 493 (48%) PPRs were located in CpG islands. This frequency of CpG islands was reduced in TATA+/Inr+ PPRs and in the PPRs of ubiquitously expressed genes. In the PPRs of the CGM2 gene, the DRA gene, and the TM30pl genes, which showed highly colon specific expression patterns, the consensus sequences of E boxes were commonly observed. The PPRs were also useful for exploring promoter SNPs

The content you want is available to Zendy users.

Already have an account? Click here to sign in.

Having issues? You can contact us here

Accelerating Research