Dictyostelium discoideum Genome Statistics

Genome Information (excluding mitochondrial genome) 1
Genome size	34 Mb
Chromosomes	6
Chromosome size range	3.5-8.6 Mb
Overall GC content	22.4%

Mitochondrial Genome 2
Mitochondrial genome size	55.6 kb
Number of mitochondrial genes	41
Mitochondrial GC content	27.4%

Gene Information (excluding non-protein-coding genes)
Mean gene size 8	1,908 bp
Mean protein size 8	580 aa
Gene spacing 1	2.5 kb
GC content in exons 8	27%
GC content in introns 1	12%
GC content in intergenic regions 1	15%

Gene Structure 8
Number of genes with introns	7,996
Mean intron size	129 bp
Mean number of introns per spliced gene	1.85

Gene Annotation Status at dictyBase 9
Number of protein-coding genes	12,257
Number of curated gene models (including pseudogenes)	11,987
Genes with GO annotations	8,167
Genes with manual GO annotations	6,152
Genes with associated strains	3,127
Genes with strains that have phenotypes	1,034

Publications 9
PubMed references for Dictyostelium discoideum	7,702
Curated references	2,271

Non-Protein-Coding Genes
Number of each rRNA gene (extrachromosomal) 3	200
tRNA genes	418
Small nuclear RNA (snRNA) genes 4	18
Small nucleolar RNA (snoRNA) genes 5	19
Other non-coding RNA (ncRNA) genes 5	35

Pseudogenes
Number of annotated pseudogenes (Genes are annotated as pseudogenes when they are truncated, have frameshifts or stop codons, and are similar to another (parent) gene in the genome).8	650
Predicted pseudogenes (William Loomis, personal communication, 2005, estimated from number of genes with sequence similarity and ESTs).	1,910

Expression Data 6
Number of ESTs	155,036
Genes with ESTs	6,801

Transposable Elements 7
Total annotated transposable elements	522
Tdd-4	26
Tdd-5	2
DDT-A	32
DDT-B	8
thug-S	14
DIRS-1	67
Skipper	30
DGLT-A	12
DGLT-B	4
TRE3-A	82
TRE3-B	73
TRE3-C	39
TRE3-D	10
TRE5-A	90
TRE5-B	30
TRE5-C	3

1) Eichinger et al. (2005)
2) Ogawa et al. (2000)
3) Sucgang et al. (2003)
4) Hinas et al. (2006)
5) Aspegren et al. (2004)
6) Urushihara et al. (2004)
7) dictyBase annotations in collaboration with T. Winckler, 2010; see also Winckler et al. (2005), Siol et al. (2011)
8) dictyBase, first pass gene curation, including pseudogenes, completed in 2011.
9) Gene annotations and (curated) PubMed references as present in dictyBase at time of update.


Last Updated March 2, 2015