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Kawarabayasi, Y. is at National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki 305-8566, Japan. 

Tanaka, T., Hino, Y., Kawarabayasi, Y. and Kikuchi, H. are original submitters.

Tajima, T., Sekigawa, T., Oguchi, A., Yamazaki, S., Tanikawa, S., Fujita, ... N. and Harayama S. submitted a revised version of the genomic sequence with a single bp insertion and the result of reannotation.

The genome of A. pernix was completely re-annotated in May 2006. Single nucleotide was inserted at position 941,216. Some ORFs were added or modified according to the result of proteome analysis at NITE (Yamazaki, S. et al., Mol Cell Proteomics. 5, 811-823 (2006)).
The detailed process of re-annotation is described in http://www.bio.nite.go.jp/dogan/GeneralFeature?GENOME_ID=ape_G1. 

All locus tags of A. pernix were replaced to new identifiers by the following rules.
1. Prefix 'APE' or 'APES' was replaced by 'APE_'.
2. ORF numbers were inherited except for those with previous locus tag starting with 'APES'.
3. An alphabetical character like 'a' was added after the ORF number where new ORF was inserted between existing ORFs, including those with previous locus tag starting with 'APES'. 4. Version number like '.1' was added where the start position of existing ORF was changed.

Please visit our web site.
URL:http://www.bio.nite.go.jp/e/

DOGAN ; Database of the Genomes Analyzed at NITE
The database contains genome sequence data, physical maps and the genomic and proteomic data of the microorganisms analyzed.
URL:http://www.bio.nite.go.jp/dogan/Top

The microbial strain and microbial genomic DNA clones used for the sequencing project are available through the NBRC. URL:http://www.nbrc.nite.go.jp/e/index.html  more

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::04/17/2022 10:50:19
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.1
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,755
CDSs (total)::1,704
Genes (coding)::1,697
CDSs (with protein)::1,697
Genes (RNA)::51
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
tRNAs::46
ncRNAs::2
Pseudo Genes (total)::7
CDSs (without protein)::7
Pseudo Genes (ambiguous residues)::0 of 7
Pseudo Genes (frameshifted)::2 of 7
Pseudo Genes (incomplete)::4 of 7
Pseudo Genes (internal stop)::1 of 7
CRISPR Arrays::3
##Genome-Annotation-Data-END##

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