Saccharomyces cerevisiae Genome Snapshot/Overview

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This page provides information on the status of the Saccharomyces cerevisiae genome. The Genome Inventory table is updated in real time. The bar graphs for GO data are updated once a day. All the data displayed on this page are available in one or more files (SGD_features.tab, gene_associations.sgd, go_slim_mapping.tab) at SGD's FTP site. The Advanced Search tool can also be used to retrieve chromosomal features that match specific criteria.

Contents

    1. Graphical View of Protein Coding Genes
    2. Genome Inventory
    3. Summary of Chromosome Sequence and Annotation Updates
    4. Summary of GO annotations
    5. Distribution of Gene Products by Process, Function, and Component

Graphical View of Protein Coding Genes (as of Aug 28, 2008)

4721 ORFs, 71.45% 1074 ORFs, 16.26% 812 ORFs, 12.29%

Genome Inventory (as of Aug 28, 2008)

This table reports the number and types of features annotated in the SGD, per chromosome. To get a list of all features of a certain type (e.g. Verified ORF, tRNA, etc.), select that feature type. To access more information on the individual chromosome (e.g. sequence, a listing of all features on that chromosome, etc.), select the Roman numeral for that chromosome.

Feature TypeTotalChromosome number
IIIIIIIVVVIVIIVIIIIXXXIXIIXIIIXIVXVXVINuclear genomeMitochondrial genome(Q)2-micron plasmid (R)
Total ORFs66071174561838363241415833212413983485785054355985116575284
Verified ORFs472172325122623223954262171612882623863683184363784700174
Uncharacterized ORFs10742075361144929916045635011484729278107220
Dubious ORFs8122556259952176644354736785345705580390
Long_terminal_repeat383922203633114424102414322416323238300
tRNA2994131028201036111024162121142017275240
ARS274111519321912211092513191716171927400
Transposable_element_genes892621742104160883888900
snoRNA771244506215571351167700
Retrotransposon5013282162130543455000
X_element_core_sequence3222222222222222223200
Telomere3222222222222222223200
Telomeric_repeat3121220213222532203100
X_element_combinatorial_repeats2812221122222222212800
rRNA27000000000002500002520
Pseudogenes2120210000900201132100
Y'_element1901012112110411121900
Centromere1611111111111111111600
ncRNA91100300200001000810
snRNA60100102000010100600
Total80001565282519724191867173882924954057146045047016097941554
Chromosome length (bp)12,156,677230,208813,178316,6171,531,919576,869270,1481,090,947562,643439,885745,742666,4541,078,175924,429784,3331,091,289948,06212,070,89885,7790

Summary of Chromosome Sequence and Annotation updates

As new data become available, SGD curators update the systematic sequence and its annotation. This table summarizes the sequence and/or annotation updates made for each chromosome, since the intital release on 1996-07-31.

Select the chromosome number to retrieve the corresponding Chromosome History page, which provides details on all the updates for that chromosome. Current and past versions of the sequence and annotation are also available on SGD's FTP site and at NCBI.

If you are aware of additional sequence or annotation changes that should be made to the reference sequence (S288C), please send a message to SGD curators. At this time, SGD does not record sequence variation between S288C and other strains of Saccharomyces cerevisiae. See the Systematic Sequencing Project page for more information about the reference sequence.

Chromosome HistorySequence UpdatesAnnotation Updates

Total Number

Last Update

Total Number

Last Update

I

28

2008-03-05

22

2007-05-08

II

44

2004-07-16

41

2007-07-09

III

694

2006-01-12

48

2008-06-04

IV

14

2008-06-05

54

2007-07-10

V

1

2000-03-16

35

2007-07-09

VI

8

2004-02-05

20

2008-06-02

VII

29

2007-12-11

45

2008-06-02

VIII

7

2005-11-07

21

2007-07-09

IX

0

N/A

22

2007-04-04

X

22

2008-06-04

27

2007-05-08

XI

30

2008-06-03

34

2007-09-05

XII

7

2006-01-09

33

2007-05-10

XIII

1

2004-02-28

25

2007-07-10

XIV

15

2006-11-09

28

2007-09-06

XV

6

2006-01-05

43

2007-07-10

XVI

5

2004-07-21

34

2007-07-10

Mitochondrial Genome

0

N/A

3

2006-01-12

Summary of Gene Ontology (GO) annotations (as of Aug 28, 2008)

This table displays the current total number of S. cerevisiae gene products that have been annotated to one or more terms in each GO aspect (Process, Function, Component). These counts include GO annotations made for ORFs classified as either "Verified" or "Uncharacterized", transposable element genes, and all RNA gene products. Note that these counts do not include GO annotations made for ORFs classified as "Dubious", or for features of type "Pseudogene", "Not in S288C" or "Not physically mapped". Also note that the number of annotations displayed in the "Total Number of Annotations" column does not include annotations to the three "root" terms representing lack of knowledge at this time, i.e. "molecular function", "biological process", or "cellular component".

OntologyDetails of Annotations
Total Number of AnnotationsNumber of Gene Products Annotated to root termsGraphical View
Molecular Function42502039Go to Molecular Function Graph
Biological Process49881301Go to Biological Process Graph
Cellular Component5475814Go to Cellular Component Graph
All Ontologies147134154 

Distribution of Gene Products by Process, Function, and Component (as of Aug 28, 2008)

These graphical views representing the GO annotation state of the entire genome are provided using a GO Slim (a high-level subset of Gene Ontology terms that allows grouping of genes into broad categories such as "DNA replication", "protein kinase activity", or "nucleus") tailored to yeast biology. GO Slim terms representing broad categories from a single aspect are listed for each graph, along with the percentage of S. cerevisiae gene products annotated to a specific term that maps up the ontology to the GO Slim term. Note that some gene products may be represented more than once, if they are annotated to one or more GO terms that map to more than one GO Slim term. Only the distribution of "known" Molecular Functions, Biological Processes, and Cellular Components are included in these graphs; annotations to the "root" terms "molecular function," "biological process," or "cellular component," which represent lack of knowledge at this time, are excluded from these graphs.

More information on GO and GO Slim can be found in SGD's GO help page. To obtain the GO data summarized in these graphs, please use the GO Slim Mapper or the go_slim_mapping.tab file from SGD's FTP site.

Distribution of Gene Products among Molecular Function Categories

Distribution of Gene Products among Biological Process Categories

Distribution of Gene Products among Cellular Component Categories

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SGDtm pages Database Copyright © 1997-2008 The Board of Trustees of Leland Stanford Junior University. Permission to use the information contained in this database was given by the researchers/institutes who contributed or published the information. Users of the database are solely responsible for compliance with any copyright restrictions, including those applying to the author abstracts. Documents from this server are provided "AS-IS" without any warranty, expressed or implied. The SGD project at Stanford University is supported by a Genome Research Resource Grant from the US National Human Genome Research Institute, part of the US National Institutes of Health.