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Davis CA, et al.  (2000) Test of intron predictions reveals novel splice sites, alternatively spliced mRNAs and new introns in meiotically regulated genes of yeast. Nucleic Acids Res 28(8):1700-6

Abstract: Correct identification of all introns is necessary to discern the protein-coding potential of a eukaryotic genome. The existence of most of the spliceosomal introns predicted in the genome of Saccharomyces cerevisiae remains unsupported by molecular evidence. We tested the intron predictions for 87 introns predicted to be present in non-ribosomal protein genes, more than a third of all known or suspected introns in the yeast genome. Evidence supporting 61 of these predictions was obtained, 20 predicted intron sequences were not spliced and six predictions identified an intron-containing region but failed to specify the correct splice sites, yielding a successful prediction rate of <80%. Alternative splicing has not been previously described for this organism, and we identified two genes (YKL186C/ MTR2 and YML034W) which encode alternatively spliced mRNAs; YKL186C/ MTR2 produces at least five different spliced mRNAs. One gene (YGR225W/ SPO70 ) has an intron whose removal is activated during meiosis under control of the MER1 gene. We found eight new introns, suggesting that numerous introns still remain to be discovered. The results show that correct prediction of introns remains a significant barrier to understanding the structure, function and coding capacity of eukaryotic genomes, even in a supposedly simple system like yeast.

Status: Published Type: Journal Article PubMed ID: 10734188

Topics addressed in this paper

Number of different genes curated to this paper: 99

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AIM11 AMA1 APE2 APS3 ARP9 ASC1 BET1 BIG1 BOS1 CDC21
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Topics Genes linked to topics (#11 - 20 )
COF1 DCN1 DID4 DTD1 ECM33 EPT1 ERD2 ERV41 GAS1 GIM5
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Topics Genes linked to topics (#21 - 30 )
GLC7 GOT1 HNT1 IMD4 IST1 IWR1 KEI1 KRE5 LPD1 LSB3
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Topics Genes linked to topics (#31 - 40 )
LSM2 LSM7 MCT1 MER1 MMS2 MPT5 MRK1 MTR2 NCB2 NCE101
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Topics Genes linked to topics (#41 - 50 )
NHP6B NOG2 NSP1 NYV1 OM14 PCH2 POP8 PRE3 RAD14 RBS1
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Topics Genes linked to topics (#51 - 60 )
RPL22B RPO26 RUB1 SFT1 SMD2 SNC1 SNT1 SPO1 SPT14 SRB2
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Topics Genes linked to topics (#61 - 70 )
SRC1 TAF14 TAN1 TDA5 TMA20 UBC13 UBC9 VPS29 VPS75 YBL059W
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Topics Genes linked to topics (#71 - 80 )
YBR090C YBR219C YBR220C YDL012C YEL076C-A YFR024C YGR001C YGR226C YHL050C YHR097C
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Topics Genes linked to topics (#81 - 90 )
YIL177C YIP3 YJL225C YJR079W YKL158W YLR202C YLR211C YLR464W YML033W YNL050C
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Topics Genes linked to topics (#91 - 99 )
YOL047C YOP1 YOR318C YPR063C YPR202W YRF1-3 YRF1-6 YRF1-7 YSC84
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