Chlamydia felis Fe/C-56 plasmid pCfe1, complete sequence.
type: Entry
definition: Chlamydia felis Fe/C-56 plasmid pCfe1, complete sequence.
sequence version: NC_007900.1
sequence date: 2022-12-30
sequence: sequence
division: CON
label: NC_007900.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMD00061108
keyword: RefSeq
source: Chlamydia felis Fe/C-56
organism: Chlamydia felis Fe/C-56
taxonomy: Bacteria; Chlamydiota; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia/Chlamydophila group; Chlamydia.
reference: 1
references: 16766509
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nAP006862.1.\nThis work was done in collaboration with Yoshinao Azuma, M.\nAkhlakur Rahman, Mutsunori Shirai (Yamaguchi University), Hideki\nHirakawa, Satoru Kuhara (Kyushu University), Yan Cai, Hideto\nFukushi (Gifu University), Tomoyuki Murakami, Kazuro Sugi (National\nSanyou Hospital) and supported by the Research for the Future\nProgram of the Japan Society for the Promotion of Science.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/30/2022 00:36:10\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 1,027\nCDSs (total) :: 983\nGenes (coding) :: 975\nCDSs (with protein) :: 975\nGenes (RNA) :: 44\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 38\nncRNAs :: 3\nPseudo Genes (total) :: 8\nCDSs (without protein) :: 8\nPseudo Genes (ambiguous residues) :: 0 of 8\nPseudo Genes (frameshifted) :: 4 of 8\nPseudo Genes (incomplete) :: 1 of 8\nPseudo Genes (internal stop) :: 3 of 8\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 7552
topology: circular
so has quality: SO_0000988
location: 1..7552
location: region:1-7552:1
RO_0002162: 264202

NC_007900
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMD00061108
type: BioSample
SIO_000068: biosample

1
title: Genome sequence of the cat pathogen, Chlamydophila felis
author: Azuma, Y.
author: Hirakawa, H.
author: Yamashita, A.
author: Cai, Y.
author: Rahman, M.A.
author: Suzuki, H.
author: Mitaku, S.
author: Toh, H.
author: Goto, S.
author: Murakami, T.
author: Sugi, K.
author: Hayashi, H.
author: Fukushi, H.
author: Hattori, M.
author: Kuhara, S.
author: Shirai, M.
journal: DNA Res
volume: 13
issue: 1
pages: 15-23
year: 2006
pubmed: 16766509

16766509
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Hattori, M.
author: Yamashita, A.
author: Toh, H.
author: Oshima, K.
author: Shiba, T.
journal: Submitted (19-MAY-2004) Contact:Masahira Hattori Graduate School of Frontier Sciences, University of Tokyo; 5-1-5 Kashiwanoha, Kashiwa, Chiba 277-8561, Japan

position:1:1
position: 1
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7552:1
position: 7552
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-7552:1:source
so part of: sequence
organism: Chlamydia felis Fe/C-56
mol type: genomic DNA
strain: Fe/C-56
plasmid: pCfe1
note: synonym: Chlamydophila felis Fe/C-56

264202
type: Taxonomy
SIO_000068: taxonomy

CF_RS05075
type: Gene
subclass of: SO_0000704
RO_0002162: 264202
locus tag: CF_RS05075
old locus tag: pCF01
so part of: sequence
location: 150..1073
location: region:150-1073:1
so has part: feature:150-1073:1:exon
subclass of: SO_0000010

position:150:1
position: 150
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1073:1
position: 1073
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:150-1073:1:exon

CF_RS05075
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 264202
locus tag: CF_RS05075
old locus tag: pCF01
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011109752.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: site-specific integrase
translation: MSGLSHYHKSRLCLTVLEAANVWLATLSPITRKNYASGIKFLVSNNILDGSMKLESLVCFDHCDALNKIKSLTSTCSGKPISEASKQARAACYISFTKFLYRLTKGIIKQASPSRDFGNSTFYKIRDKVKTEFISKQEWLLFFDALKRISFRDYLIGKLIIQGVRKLNEVISLRTEDLSFAQNLVTFKVKKRQNRFQEVKVNYPSFLMQELRDYLGNREGWVFVSGEGQQVAINQVYYYFKLAESDINSPIKVTPHVLRASALAYLKKMGFADQEIMRVSCLSSTQMLSAYDTGNIDNITSQLPLIF
SIO_010081: CF_RS05075
subclass of: SO_0000673
so part of: CF_RS05075
location: 150..1073
location: region:150-1073:1
so has part: feature:150-1073:1:exon

WP_041468112.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:150-1073:1:exon

CF_RS05080
type: Gene
subclass of: SO_0000704
RO_0002162: 264202
locus tag: CF_RS05080
old locus tag: pCF02
so part of: sequence
location: complement(1157..2125)
location: region:1157-2125:-1
so has part: feature:1157-2125:-1:exon
subclass of: SO_0000010

position:1157:-1
position: 1157
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2125:-1
position: 2125
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1157-2125:-1:exon

CF_RS05080
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 264202
locus tag: CF_RS05080
old locus tag: pCF02
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006343679.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: site-specific integrase
translation: MFESKVYRSNLTHQEFLSIKNECIWKGLRDIQLSEAIFIWISSLNSHTARSYKGSVLALERIGLISLKMSLQEFALVNHNIILDSIKQVPEEIVHWSEGTKQVRAACYISLTKFLNRATSGMIPIAQPSHQESNKTFYKLRDLVKTNAMSRIERVAFLEALKNINYRDWLIAQTILQGAKRVTEVLSVTTDKISFDNGTISFDQSKNRGVSKITIITYPQQFMKLIQVYLGNRSGLVFVTKKGKGVSLKQLAGTFAKAGIKANIPFKVTPHVLRATAVTEYKKMGCSDSEIMKVTGHSSSKMIYAYDKSIASENASKKVSLI
SIO_010081: CF_RS05080
subclass of: SO_0000673
so part of: CF_RS05080
location: complement(1157..2125)
location: region:1157-2125:-1
so has part: feature:1157-2125:-1:exon

WP_041468113.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1157-2125:-1:exon

CF_RS05085
type: Gene
subclass of: SO_0000704
RO_0002162: 264202
locus tag: CF_RS05085
old locus tag: pCF03
so part of: sequence
location: 2268..3644
location: region:2268-3644:1
so has part: feature:2268-3644:1:exon
subclass of: SO_0000010

position:2268:1
position: 2268
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3644:1
position: 3644
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2268-3644:1:exon

CF_RS05085
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 264202
locus tag: CF_RS05085
old locus tag: pCF03
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014951477.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replicative DNA helicase
translation: MMKQSEEEKELLDVEFFVLGQAVNYLEHAHTVVRRLSEHHFKLESHKNIFLLIRDILHTRETISISLIWEEIKRRNLDKFMDVSYLIHMSQNADIPIDLDHHIDFLHEKHVNNLLKEFLDLSFQDFTRYPNRRSPYTLVDQFKERLDTIHKKTSYPRRKNIGKTVYDIFSSGDDGKNGVISQIRHRYDYRSKHQTDYVDGLPTGYPSIDEHSIILSKGNFVVVAARPAMGKTAFAIDIALNLVLEQEKGVGFISLEMSPNQIVERIVSNLSNISCEQLKRGNFPKDVLSKIENLGTKLKKTNFFICDNKSSDLNYLIDQARELKESQSIDALFIDYLQLIGGNKKAENRQNEIAEISRQLRKLAGELQIPVVCLSQLSRKVEDRGDKRPMLSDLRDSGQIEQDADVILFLHRKDYYSQEATKGLSEIIIGKNRHGSVFSTNLMFNSSTGKFSVQKEAW
SIO_010081: CF_RS05085
subclass of: SO_0000673
so part of: CF_RS05085
location: 2268..3644
location: region:2268-3644:1
so has part: feature:2268-3644:1:exon

WP_041468114.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2268-3644:1:exon

CF_RS05090
type: Gene
subclass of: SO_0000704
RO_0002162: 264202
locus tag: CF_RS05090
old locus tag: pCF04
so part of: sequence
location: 3638..4681
location: region:3638-4681:1
so has part: feature:3638-4681:1:exon
subclass of: SO_0000010

position:3638:1
position: 3638
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4681:1
position: 4681
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3638-4681:1:exon

CF_RS05090
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 264202
locus tag: CF_RS05090
old locus tag: pCF04
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014951478.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MVKSENQIIKSSLHLENQKFGRKPQLTEDQLELFSSVCTESKIEVIGLDLQPSHYHALAAIQKLLTATNYRGNLEGSYLSRETNTFKFEGTIPRIKFTKSEYLEAYGVKKYKTSRNKNEFGGKEALIALEALYHLGNEPYLIVATRKRWNKGEEVVDRYQTFSPILRICEGWEGLTPKENKALDEEPFLNLISKKHKGFIIEPCPIIVDQIDSYFVLKPANMYQEIKLRFPNASKFTYTFIDWIVSTATRKKMNSSGVKEWPDKIEIGFENLSYTLRMNRYITSRNWKKIELAISRCIEIAIELKWLTKHERIQGKTISKKEVFYLNKNKFQQISTNKTIQNTTNNN
SIO_010081: CF_RS05090
subclass of: SO_0000673
so part of: CF_RS05090
location: 3638..4681
location: region:3638-4681:1
so has part: feature:3638-4681:1:exon

WP_041468115.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3638-4681:1:exon

CF_RS05095
type: Gene
subclass of: SO_0000704
RO_0002162: 264202
gene: pgp3
locus tag: CF_RS05095
old locus tag: pCF05
so part of: sequence
location: 4736..5530
location: region:4736-5530:1
so has part: feature:4736-5530:1:exon
subclass of: SO_0000010

position:4736:1
position: 4736
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5530:1
position: 5530
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4736-5530:1:exon

CF_RS05095
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 264202
gene: pgp3
locus tag: CF_RS05095
old locus tag: pCF05
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014951470.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: virulence factor Pgp3
translation: MGNSGFCLCNTQNCVFADNIKIGQMTSPLQNQQLLIGTDSTPVAAKITAKEGLKVEIQTKTGQDASIDLSIDPKALSDLILGQIQEGLIDAIIKNITSSLVQDVIDMIVSDPTLHLKNAFKNFPISEKIQCNGLFTKSNIGTLVGGTEIGKFTITPENTNSTFLISADIIASRMEGNVVLALVKEGDTAPCAISYGYSSGIPNVCSLRTSVSNSGATPVTFSLRVGGMESGVVWVNALANGDSILGTTTVSNISFLEVKQQTNG
SIO_010081: CF_RS05095
subclass of: SO_0000673
so part of: CF_RS05095
location: 4736..5530
location: region:4736-5530:1
so has part: feature:4736-5530:1:exon

WP_041468116.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4736-5530:1:exon

CF_RS05100
type: Gene
subclass of: SO_0000704
RO_0002162: 264202
locus tag: CF_RS05100
so part of: sequence
location: 5626..5934
location: region:5626-5934:1
so has part: feature:5626-5934:1:exon
subclass of: SO_0000010

position:5626:1
position: 5626
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5934:1
position: 5934
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5626-5934:1:exon

CF_RS05100
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 264202
locus tag: CF_RS05100
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012209817.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MNNRQSMTNDFIKIVKDVEKDFPELDIKMKIHKEKITFLNSPSELYHKSISVILNLLNQIQTSLGLFPDSPIIEQMELNNLKLKKALIMLILSRKDMFSKTE
SIO_010081: CF_RS05100
subclass of: SO_0000673
so part of: CF_RS05100
location: 5626..5934
location: region:5626-5934:1
so has part: feature:5626-5934:1:exon

WP_041468118.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5626-5934:1:exon

CF_RS05105
type: Gene
subclass of: SO_0000704
RO_0002162: 264202
locus tag: CF_RS05105
old locus tag: pCF07
so part of: sequence
location: 5965..6744
location: region:5965-6744:1
so has part: feature:5965-6744:1:exon
subclass of: SO_0000010

position:5965:1
position: 5965
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6744:1
position: 6744
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5965-6744:1:exon

CF_RS05105
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 264202
locus tag: CF_RS05105
old locus tag: pCF07
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014951469.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ParA family protein
translation: METLAFCSFKGGTGKTTLSFNVGSNLAQISKKRVLLVDLDPQANLTTSLGVQIHEEYSLNEVLRNSNEIARAIHKTKIENLDIIPSSVLVEDFRGLNKDASLSVNHLHLALQEIQNQYDICILDTPPSLGILTQEAFLASQYLVVCLTPEPFSILGLQKIKEFCSTIANDLDVLGIVFSFWDERNSTNSTYIGIIETIYEGKILSSKVRRDITVSRSLLKEAPVINVYPNSRAAQDILNLTKEIENKLFFNNKLVQETL
SIO_010081: CF_RS05105
subclass of: SO_0000673
so part of: CF_RS05105
location: 5965..6744
location: region:5965-6744:1
so has part: feature:5965-6744:1:exon

WP_041468117.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5965-6744:1:exon

CF_RS05110
type: Gene
subclass of: SO_0000704
RO_0002162: 264202
locus tag: CF_RS05110
old locus tag: pCF08
so part of: sequence
location: 6741..7481
location: region:6741-7481:1
so has part: feature:6741-7481:1:exon
subclass of: SO_0000010

position:6741:1
position: 6741
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7481:1
position: 7481
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6741-7481:1:exon

CF_RS05110
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 264202
locus tag: CF_RS05110
old locus tag: pCF08
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011109751.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: CT583 family protein
translation: MSKLIKEASAFFQKNKENTAKEFHKKEFAMDVFSVSLSEDEKEQIENLIVSRYDHLDSKFSNGLASIKLLTGQIKSIQKQHVLLIGEKIYRVREILRSMNSPETTFSAWVNLVFHTKSSAYNALGYYELFISLPDKNTKSLFQSIPYKTAYLLASRKGSVKEKVRILGKIEGMSNSSAIDILNKFLPSLRSSQAGKLVGFEEKNKELSEKLIEILKIVCSDLELSEHNRNLLQQLFEKTLHTNSGC
SIO_010081: CF_RS05110
subclass of: SO_0000673
so part of: CF_RS05110
location: 6741..7481
location: region:6741-7481:1
so has part: feature:6741-7481:1:exon

WP_011458558.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6741-7481:1:exon