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Candida albicans Genome Snapshot/Overview

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This page provides information on the status of the Candida albicans 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 Mar 10, 2010)

4721 ORFs, 76.18% 1296 ORFs, 20.91% 180 ORFs, 2.90%

Genome Inventory (as of Mar 10, 2010)

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

Feature TypeTotalChromosome number
Ca21chr1Ca21chr2Ca21chr3Ca21chr4Ca21chr5Ca21chr6Ca21chr7Ca21chrRNuclear genomeMitochondrial genome
Total ORFs619713801014757673521437407988617720
Verified ORFs1296305214172143110858018712960
Uncharacterized ORFs47211042777562509394338313766470120
Dubious ORFs18033232321171414351800
tRNA156232421176413012630
Long_terminal_repeat12925201014101011291290
Repeat_region42551655105420
Retrotransposon1222110123120
Pseudogenes81100110480
Blocked_reading_frame81301011180
Centromere81111111180
rRNA60000000442
snRNA50111000250
ncRNA20000000220
snoRNA10010000010
Total6574143810717937145444604331069652252
Chromosome length (bp)14,324,3173,188,5482,232,0351,799,4081,603,4431,190,9281,033,530949,6162,286,38914,283,89740,420

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.

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 Candida albicans.

Chromosome HistorySequence UpdatesAnnotation Updates

Total Number

Last Update

Total Number

Last Update

Ca21chr1

108

2008-11-25

41

2008-12-03

Ca21chr2

262

2008-11-07

32

2009-05-19

Ca21chr3

54

2008-11-07

17

2009-05-12

Ca21chr4

82

2008-11-07

21

2009-05-13

Ca21chr5

28

2008-11-07

27

2009-03-24

Ca21chr6

77

2008-11-07

14

2008-12-03

Ca21chr7

12

2008-11-07

12

2008-12-03

Ca21chrR

85

2008-11-07

32

2009-05-12

Ca19-mtDNA

0

N/A

2

2009-01-21

Summary of Gene Ontology (GO) annotations (as of Mar 10, 2010)

This table displays the current total number of C. albicans 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 Function3511Go to Molecular Function Graph
Biological Process4174Go to Biological Process Graph
Cellular Component4127Go to Cellular Component Graph
All Ontologies11812 

Distribution of Gene Products by Process, Function, and Component (as of Mar 10, 2010)

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. albicans 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 Biological Process Categories

Distribution of Gene Products among Cellular Component Categories

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