SGD

These pages are supplemental data for Botstein et al. (1997) Science 277:1259.
The data has not been updated since the analysis was performed.

Mammalian Homology to Yeast

Mammalian Vertebrate XREFdb SGD
ORF Lists Sample Alignments Methods

REFERENCE: Botstein, D., Chervitz, S.A., and Cherry, J.M., (1997), "Yeast as a Model Organism", Science 277: 1259. Results are based on analysis of GenBank sequences as of 22 July 1997.

[x] Retrieve a yeast-against-mammal BLAST report. (See Methods).
Enter a yeast gene or ORF name:

Summary of Mammalian Homologs Based on P-Value

P-Value Number of ORFs at P-value or Lower Percent of Total ORFs (n=6223) Percent of ORFs with unknown function1
1 X 10-10 1918 30.8% 34.0%
1 X 10-20 1553 25.0% 30.1%
1 X 10-40 1089 17.5% 26.2%
1 X 10-60 793 12.7% 22.8%
1 X 10-80 586 9.4% 21.5%
1 X 10-100 453 7.3% 21.0%
1 X 10-150 236 3.8% 22.6%
1 X 10-200 123 2.0% 25.0%
1Shown is the percent of ORFs with unknown function within the listed P-value cutoff. "Unknown function" means that the ORF had no entry in either the Gene_Product or Description fields within its SGD Locus page as of 30 Jul 1997. For all ORFs, 3783 (60.8%) have unknown function by this definition. For more details, see Methods.

Summary of Mammalian Homologs Based on Percent Identity *

Percent Identity Number of ORFs at Percent Identity or Higher Percent of Total ORFs (n=6223)
30% 1455 23%
40% 998 16%
50% 545 8.8%
60% 241 3.9%
70% 90 1.4%
80% 28 0.5%
90% 12 0.2%
* The second column lists the number of yeast ORFs with at least the indicated percent of amino acid identity over 50% or more of the yeast sequence for a given comparison.

Lists of ORFs with Mammalian Homologs

Based on Blast P-value Based on Percent Identity
1 X 10-200 Blast | SGD
1 X 10-150 Blast | SGD
1 X 10-100 Blast | SGD
1 X 10-80 Blast | SGD
1 X 10-60 Blast | SGD
1 X 10-40 Blast | SGD
1 X 10-20 Blast | SGD
1 X 10-10 Blast | SGD
90% Identical Blast | SGD
80% Identical Blast | SGD
70% Identical Blast | SGD
60% Identical Blast | SGD
50% Identical Blast | SGD
40% Identical Blast | SGD
30% Identical Blast | SGD


Functional Homologs: Sample Alignments

Yeast Gene BLASTN P-value * Percent Identity Percent Similarity Mammalian Gene
(Human unless noted)
ACT1 1.4e-243 89 94 Cytoskeletal gamma actin
CDC28 5.0e-130 60 78 Cell cycle control (CDC2)
RHO1 3.1e-92 72 81 GTP-binding, Ras-like (bovine RHO)
CMD1 1.3e-55 60 77 Calmodulin
CDC8 5.6e-48 44 61 Thymidylate kinase
RPB8 4.5e-21 37 65 RNA polymerase II subunit (RPB17)
ADE8 1.0e-13 36 56 Purine biosynthesis (PGFT)

Disease Genes: Sample Alignments

Yeast Gene BLASTN P-value * Percent Identity Percent Similarity Mammalian Gene
(Human unless noted)
MSH2 3.8e-255 43 65 Mutator gene (MSH2, colon cancer)
YCF1 2.4e-157 31 57 Cystic fibrosis conductance regulator (CFTR)
GEF1 3.4e-95 33 58 Voltage-gated chloride ion channel
TEL1 8.8e-84 49 36 Ataxia telangiectasia gene
YNL161W 8.5e-82 41 65 Myotonic dystrophy associated protein kinase
SOD1 8.9e-56 55 69 Superoxide dismutase (SOD-1)
SGS1 3.1e-50 24 34 Werner's Syndrome gene
IRA2 1.0e-28 21 45 Neurofibromin (NF1)
* The P-value links to a file containing a Needleman and Wunsch alignment of the yeast and human sequence. For more details, see Methods.
Reference: Bassett, D.E. Jr., et al., (XREFdb)
Steve A. Chervitz and the SGD team
http://genome-www.stanford.edu/mammal/
Last Modified: 4 Sep 1997