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Yeast Species

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S. cerevisiae
The April 2011 Saccharomyces cerevisiae genome assembly (Saccharomyces cerevisiae S288c assembly from Saccharomyces Genome Database (GCA_000146055.2)) was produced by the Saccharomyces Genome Database (SGD) project. For more information about this assembly, see SacCer_Apr2011 in the NCBI Assembly database.
data transfered from UCSC on Oct 12 ,2012

Saccharomyces cerevisiae sacCer2

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The June 2008 (Saccharomyces cerevisiae) genome assembly is based on sequence dated June 2008 in the Saccharomyces Genome Database (SGD).

Sample position queries

A genome position can be specified by the name of a gene or an ORF, the accession number of an mRNA or EST, a chromosomal range, or a keyword from a SGD gene description or GenBank mRNA description. The following list provides examples of valid position queries for the yeast genome. See the User's Guide for more information.

Request:	Genome Browser Response:

chrIII		Displays all of chromosome III
chrXVI:551,819-563,822		Displays the indicated bases from chromosome XVI
D38368		Shows region where GenBank mRNA D38368 aligns
AA417514		Displays region where EST AA417514 aligns
swi1		Displays the genomic region encoding the SWI1 component of the SWI/SNF chromatin remodeling complex
YPL016W		Same as above. YPL016W is the ORF name for SWI1

meiosis		Lists genes and mRNAs that include "meiosis" in their description
Menees		Lists RNAs deposited by scientist named Menees
Roeder,G.S.		Lists mRNAs deposited by co-author G. S. Roeder

Use this last format for author queries. Although GenBank requires the search format Roeder GS, internally it uses the format Roeder,G.S..

Assembly details

Chromosomes available in this assembly: chrI, chrII, chrIII, chrIV ... etc ... chrXVI, chrM, 2micron. The 2micron sequence is the 2-micron plasmid. See also: SGD genome snapshot/overview

This sequence, open reading frame (ORF), and gene annotations were downloaded from the site ftp://genome-ftp.stanford.edu/pub/yeast/data_download. The S288C strain was used in this sequencing project. Reference information for each chromosome may be found in the SGD Systematic Sequencing Table. For more information about the yeast genetic and physical maps, see the paper Cherry JM et al. Genetic and physical maps of Saccharomyces cerevisiae. Nature 1997 387(6632 Suppl):67-73.

Downloads of the yeast data and annotations may be obtained from the UCSC Genome Browser FTP server or Downloads page. The S. cerevisiae annotation tracks were generated by UCSC and collaborators worldwide. See the Credits page for a detailed list of the organizations and individuals who contributed to this release.

S. paradoxus

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Data obtained from the Saccharomyces sensu stricto database

raw data is available here

S. mikatae sacMik2

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S. mikatae

Data obtained from the Saccharomyces sensu stricto database

raw data is available here

16 Chromosomes and one chromosome , chrUn, that contains unplaced contigs. The unplaced contigs are seperated by 2000 N's

Feb 2015

S. mikatae sacMik1

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S. mikatae

Data obtained from the Saccharomyces sensu stricto database

raw data is available here

Feb 2015

S. kudriavzevii

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Data obtained from the Saccharomyces sensu stricto database

raw data is available here

S. kudriavzevii (Port)

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Data obtained from the Saccharomyces sensu stricto database

raw data is available here

S. bayanus sacBay2

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S. bayanus

Data obtained from the Saccharomyces sensu stricto database

raw data is available here

Feb 2015

S. bayanus sacBay1

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Data obtained from the Saccharomyces sensu stricto database

raw data is available here

Lachancea kluyveri

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data and information is from here
Lachancea kluyveri
Petite-negative budding yeast (known as Lachancea kluyveri or Saccharomyces kluyveri) sequenced for comparative genomics studies
Lineage: Eukaryota[2734]; Fungi[1237]; Dikarya[1138]; Ascomycota[866];
Saccharomycotina[196]; Saccharomycetes[196]; Saccharomycetales[196]; Saccharomycetaceae[54]; Lachancea[11]; Lachancea kluyveri[1]

The budding yeast Lachancea kluyveri (synonym: Saccharomyces kluyveri), is petite negative and has a pathway for pyrimidine degradation. It does not primarily ferment glucose.

Lachancea kluyveri is more distantly related to Saccharomyces cerevisiae than are Saccharomyces sensu stricto or sensu lato species.

As part of a comparative genomics approach to improve the annotation and understanding of the Saccharomyces cerevisiae genome, the Washington University School of Medicine (WashU) sequenced the genome of Lachancea kluyveri.

The Genolevures Consortium sequenced the genome of Lachancea kluyveri in a comparative genomics study of ascomycete yeasts.
The Lachancea kluyveri genome is approximately 12.6 Mb, organized in 8 chromosomes.

yeastVirusV1

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Saccharomyces cerevisiae virii

L-A virus: NCBI details of L-A virus >gi|558066|gb|J04692.1|SCSCOATRNA Saccharomyces cerevisiae virus L-A major coat protein, ssRNA-binding protein, and RNA polymerase genes, complete cds chrom:chrLA
L-BC virus NCBI details L-BC virus >gi|9627980|ref|NC_001641.1| Saccharomyces cerevisiae virus L-BC (La), complete genome chrom: chrLBC
M1 toxin/immunity RNA NCBI details plasmid M1-P1 >gi|171869|gb|K02042.1|YSCM1P1 Yeast (S. cerevisiae) M1 plasmid, M1-P1 preprotoxin gene chrom: chrM1P1

NCBI annotated genes
>M1-P1_preprotoxin protein_id="AAA34748.1" db_xref="GI:171870"
>ssRNA-binding_LA protein_id="AAA50507.1" db_xref="GI:557595"
>major_coat_LA protein_id="AAA50506.1" db_xref="GI:557594"
>RNA_polymerase_LA RNA-dependent RNA polymerase of icosahedral RNA viruses; " product="RNA polymerase" protein_id="AAA50508.1" db_xref="GI:557596"
>capsid_LBC gene="cap" product="capsid" protein_id="NP_042580.1" db_xref="GI:9627981" db_xref="GeneID:1403711"
>RNA_polymerase_LBC gene="pol" db_xref="GeneID:1403712" product="RNA polymerase" protein_id="NP_042581.1" db_xref="GI:9627982" db_xref="GeneID:1403712"

sacCer3 Insert KHIS3v1

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SacCer3 with S.kluyveri HIS3 insertion at position 585,490

UCSC Genome Browser assembly ID: sacCer3InsKHIS3v1
Sequencing/Assembly provider ID: 1
Assembly date: May 2013

Insertions of k-HIS3: At the position 585,490 of the sacCer3 assembly, the S.kluyveri HIS3 gene is inserted.

kHIS3InsM chromosome sequence derived from: 11530 bases upstream, then insertion on minus strand, then 6710 bases downsteam.

kHIS3InsP chromosome sequence derived from: 11530 bases upstream, then insertion on plus strand, then 6710 bases downsteam.

Schizosaccharomyces pombe

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Schizosaccharomyces pombe 972h-

Obtained from ENSEMBL (June 2014)
Original source: POMBASE

Architectural Plan of S. pombe Johanna Hoog and Claude Anthony
Assembly: ASM294v2 (Schizosaccharomyces pombe assembly from the S. pombe European Sequencing Consortium (EUPOM)),
INSDC Assembly GCA_000002945.2, May 2009
Database version: 75.2
Base Pairs: 12,631,379
Golden Path Length: 12,631,379
Genebuild method: Imported from PomBase

This browser uses UCSC Genome software, but is not supported by UCSC Genome Browser group. It is a product of the Ares Lab

It is also not a complete mirror of services from the full UCSC Browser Suite. In particular, sessions are not supported.

Questions , comments and problems can be directed to donohue @ ucsc.edu