A 38 kb segment containing the cdc2 gene from the left arm of fission yeast chromosome II: sequence analysis and characterization of the genomic DNA and cDNAs encoded on the segment

Machida, M., Yamazaki, S., Kunihiro, S., Tanaka, T., Kushida, N., Jinno, K., Haikawa, Y., Yamazaki, J., Yamamoto, S., Sekine, M., Oguchi, A., Nagai, Y., Sakai, M., Aoki, K., Ogura, K., Kudoh, Y., Kikuchi, H., Zhang, M. Q., Yanagida, M. (January 2000) A 38 kb segment containing the cdc2 gene from the left arm of fission yeast chromosome II: sequence analysis and characterization of the genomic DNA and cDNAs encoded on the segment. Yeast, 16 (1). pp. 71-80. ISSN 0749-503X

URL: http://www.ncbi.nlm.nih.gov/pubmed/10620777
DOI: 10.1002/(SICI)1097-0061(20000115)16:1<71::AID-YEA505>3.0.CO;2-5

Abstract

A genomic 38 kbp segment on the c1750 cosmid clone containing the cdc2 gene, located in the left ann of chromosome II from Schizosaccharomyces pombe, was sequenced, The segment was found to have five previously known genes, pht1, cdc2, his3, act1 and mei4. Among 11 coding sequences (CDSs) predicted by the gene finding software INTRON.PLOT., four CDSs, pi007, pi010, pi014 and pi016, had considerable similarity to 40S ribosomal protein, glycosyltransferase, cdc2-related protein kinase and alpha-1,2-mannosyltransferase, respectively. Another unusually huge open reading frame (ORF) (pi011), consisting of 2233 amino acids, existed, having significant homology to a-amylase, granule-bound glycogen synthase and the Sz. pombe YS 1110 clone product at the N-terminal, middle and C-terminal regions, respectively. All the predicted 11 CDSs were experimentally analysed by RACE PCR. The sequencing of the RACE products revealed that there were two small overlaps at the 3' untranslated regions (UTRs) between pi004 and pi005 (17 bp) and between pi007 and pi008 (2 bp). The distances between 5' end of the 5'UTR and the putative translation initiation codon varied from 10 to 302 nucleotides (nt) among the nine CDSs successfully analysed by 5'-RACE. The expression level of each CDS on this clone was determined. Among the 16 genes on this clone, the previously determined genes, pht1, cdc2, his3 and act1, were found to be most highly expressed. Finally, cDNAs of all the newly identified genes were detected by RACE, proving the actual expression of these genes. The nucleotide sequence has been submitted to the EMBL database under Accession No. AB004534. Copyright (C) 2000 John Wiley & Sons, Ltd.

Item Type: Paper
Uncontrolled Keywords: Schizosaccharomyces pombe chromosome II pht1 cdc2 his3 act1 mei4 OPEN READING FRAMES SCHIZOSACCHAROMYCES-POMBE SACCHAROMYCES-CEREVISIAE DISCRIMINANT-ANALYSIS NUCLEOTIDE-SEQUENCE MOLECULAR-CLONING IDENTIFICATION AMPLIFICATION TRANSCRIPTION EXPRESSION
Subjects: bioinformatics
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification
bioinformatics > genomics and proteomics
bioinformatics > genomics and proteomics > analysis and processing > Sequence Data Processing
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > chromosome
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > chromosomes, structure and function > chromosome

bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > chromosomes, structure and function
Investigative techniques and equipment > assays > whole genome sequencing
organism description > yeast
CSHL Authors:
Communities: CSHL labs > Zhang lab
Depositing User: Matt Covey
Date: January 2000
Date Deposited: 31 Jan 2014 20:46
Last Modified: 31 Jan 2014 20:46
Related URLs:
URI: http://repository.cshl.edu/id/eprint/29344

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