Thousands of missed genes found in bacterial genomes and their analysis with COMBREX

Biology Direct

Table 6 Comparison of GenBank and RefSeq annotations for the ten chromosomes with the highest named missed gene rates

Genome	GenBank annotation		RefSeq annotation		Common genes
	# Genes	# Unique Genes	# Genes	# Unique Genes	# Genes	# 5′ changes
N. gonorrhoeae FA 1090	2002	0	2002	0	2002	9
L. fermentum CECT 5716	1051	0	1051	0	1051	0
S. glossinidius str. ‘morsitans’	2432	0	2432	0	2432	13
E. coli APEC 01	4467	39	4430	2	4428	72
C. tetani E88	2373	0	2380	7	2373	21
B. thurengiensis str. Al Hakam	4736	0	4736	0	4736	33
S. pneumoniae INV104	1824	4	1820	0	1820	0
Y. pestis Z176003	3542	0	3546	4	3542	0
Y. pestis D106004	3629	0	3629	0	3629	0
Y. pestis D182038	3620	0	3620	0	3620	0

Genes not contained in both annotations (as determined by stop codon position) for a given genome are considered “unique”, while those contained in both are “common”. For common genes, “# 5’ changes” indicates the number of genes that have differing start codon annotations.

ISSN: 1745-6150