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Candida glabrata CBS138 Genome Snapshot/Overview

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This page provides information on the status of the C. glabrata CBS138 genome. Data on this page are updated once a day. All the data displayed on this page are available in one or more files (Chromosomal Feature File; GO Annotations File; Candida Go Slim Annotations File) on the CGD Download Data page. 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 Feb 22, 2012)

5030 ORFs, 96.49% 183 ORFs, 3.51%

Genome Inventory (as of Feb 22, 2012)

This table reports the number and types of features annotated in CGD, per chromosome (excluding unmapped features). 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 each chromosome name. (Feature types that are not yet annotated in CGD are not listed in the table below.)

Feature TypeTotalChromosome number
ChrA_C_glabrata_CBS138ChrB_C_glabrata_CBS138ChrC_C_glabrata_CBS138ChrD_C_glabrata_CBS138ChrE_C_glabrata_CBS138ChrF_C_glabrata_CBS138ChrG_C_glabrata_CBS138ChrH_C_glabrata_CBS138ChrI_C_glabrata_CBS138ChrJ_C_glabrata_CBS138ChrK_C_glabrata_CBS138ChrL_C_glabrata_CBS138ChrM_C_glabrata_CBS138mito_C_glabrata_CBS138Nuclear genome
Total ORFs5213200212230283278383433460463514556575615115213
Verified ORFs18341012111415131516122413231183
Uncharacterized ORFs5030196202218272264368420445447502532562592105030
tRNA230997189151814261722251823230
Pseudogenes222422111112113022
Centromere111111111001111011
ncRNA100100000012311110
rRNA6000000000004026
Repeat_region2000100100000002
Total5494212227240305289400454475491536583607638375494
Chromosome length (bp)12,338,305491,328502,101558,804651,701687,738927,101992,2111,050,3611,100,3491,195,1291,302,8311,455,6891,402,89920,06312,338,305

Summary of Chromosome Sequence and Annotation updates

As new data become available, CGD curators update the systematic sequence and its annotation. This table summarizes the sequence and/or annotation updates made for each chromosome.

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 the CGD Download Data page. Detailed information about the sequence data in CGD, including the sources from which sequence-based information are dervived, and a history of the reference strain genome assemblies, is found on the Sequence Documentation page.

If you are aware of additional sequence or annotation changes that should be made to the reference sequence, please send a message to CGD curators. At this time, CGD does not record sequence variation between SC5314 and other strains of C. glabrata CBS138.

Chromosome HistorySequence UpdatesAnnotation Updates

Total Number

Last Update

Total Number

Last Update

ChrA_C_glabrata_CBS138

0

N/A

2

2011-07-26

ChrB_C_glabrata_CBS138

0

N/A

2

2011-07-26

ChrC_C_glabrata_CBS138

0

N/A

2

2011-07-26

ChrD_C_glabrata_CBS138

0

N/A

2

2011-07-26

ChrE_C_glabrata_CBS138

0

N/A

2

2011-07-26

ChrF_C_glabrata_CBS138

0

N/A

2

2011-07-26

ChrG_C_glabrata_CBS138

0

N/A

2

2011-07-26

ChrH_C_glabrata_CBS138

0

N/A

2

2011-07-26

ChrI_C_glabrata_CBS138

0

N/A

3

2011-09-15

ChrJ_C_glabrata_CBS138

3

2011-09-15

2

2011-07-26

ChrK_C_glabrata_CBS138

0

N/A

2

2011-07-26

ChrL_C_glabrata_CBS138

0

N/A

2

2011-07-26

ChrM_C_glabrata_CBS138

0

N/A

2

2011-07-26

mito_C_glabrata_CBS138

0

N/A

2

2010-11-17

Summary of Gene Ontology (GO) annotations (as of Feb 22, 2012)

This table displays the current total number of C. glabrata CBS138 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" or "Not physically mapped"

OntologyDetails of Annotations
Total Number of AnnotationsGraphical View
Molecular Function3781Go to Molecular Function Graph
Cellular Component4233Go to Cellular Component Graph
Biological Process4339Go to Biological Process Graph
All Ontologies12353 

Distribution of Gene Products by Process, Function, and Component (as of Feb 22, 2012)

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 Candida biology. GO Slim terms representing broad categories from a single aspect are listed for each graph, along with the percentage of C. glabrata CBS138 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.

More information on GO and GO Slim can be found at SGD's GO help page or in the Gene Ontology documentation. To obtain the GO data summarized in these graphs, please contact CGD curators or use the GO Slim Mapper. An alternative processing of the same data, with some redundancies removed, is available in the Candida GO Slim Annotations File on the CGD Download Data page.

Distribution of Gene Products among Molecular Function Categories

Distribution of Gene Products among Cellular Component Categories

Distribution of Gene Products among Biological Process Categories

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