Candidatus Chlamydia sanziniae strain 2742-308 plasmid unnamed, complete sequence.
type: Entry
definition: Candidatus Chlamydia sanziniae strain 2742-308 plasmid unnamed, complete sequence.
sequence version: NZ_CP014640.1
sequence date: 2023-03-19
sequence: sequence
division: CON
label: NZ_CP014640.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN04510831
keyword: RefSeq
source: Candidatus Chlamydia sanziniae
organism: Candidatus Chlamydia sanziniae
taxonomy: Bacteria; Chlamydiota; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia/Chlamydophila group; Chlamydia.
reference: 1
references: 27595750
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP014640.1.\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-Assembly-Data-START##\nAssembly Method :: SPAdes v. 3.1.1\nGenome Coverage :: 6.0\nSequencing Technology :: Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/19/2023 10:12:19\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) :: 988\nCDSs (total) :: 944\nGenes (coding) :: 938\nCDSs (with protein) :: 938\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) :: 6\nCDSs (without protein) :: 6\nPseudo Genes (ambiguous residues) :: 0 of 6\nPseudo Genes (frameshifted) :: 2 of 6\nPseudo Genes (incomplete) :: 4 of 6\nPseudo Genes (internal stop) :: 0 of 6\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 7504
topology: circular
so has quality: SO_0000988
location: 1..7504
location: region:1-7504:1
RO_0002162: 1806891

NZ_CP014640
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN04510831
type: BioSample
SIO_000068: biosample

1
title: Culture-independent genomic characterisation of Candidatus Chlamydia sanzinia, a novel uncultivated bacterium infecting snakes
author: Taylor-Brown, A.
author: Bachmann, N.L.
author: Borel, N.
author: Polkinghorne, A.
journal: BMC Genomics 17 (1), 710 (2016)
pubmed: 27595750
comments: Publication Status: Online-Only

27595750
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Taylor-Brown, A.
author: Bachmann, N.L.
author: Borel, N.
author: Polkinghorne, A.
journal: Submitted (07-MAR-2016) Faculty of Science, Health, Education and Engineering, University of the Sunshine Coast, 90 Sippy Downs Drive, Sippy Downs, Queensland 4556, Australia

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

position:7504:1
position: 7504
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-7504:1:source
so part of: sequence
organism: Candidatus Chlamydia sanziniae
mol type: genomic DNA
strain: 2742-308
isolation source: choana
host: Sanzinia madagascariensis volontany
plasmid: unnamed
country: Switzerland: Perrefitte
collection date: 2013-11

1806891
type: Taxonomy
SIO_000068: taxonomy

Cs308_RS04885
type: Gene
subclass of: SO_0000704
RO_0002162: 1806891
locus tag: Cs308_RS04885
old locus tag: Cs308_1003
so part of: sequence
location: complement(join(6815..7504,1..681))
location: region:1-7504:-1
so has part: feature:1-681:-1:exon
so has part: feature:6815-7504:-1:exon
subclass of: SO_0000010

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

position:7504:-1
position: 7504
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-681:-1:exon

position:681:-1
position: 681
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:6815-7504:-1:exon

position:6815:-1
position: 6815
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

Cs308_RS04885
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1806891
locus tag: Cs308_RS04885
old locus tag: Cs308_1003
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
GO function: GO:0005524 - ATP binding [Evidence IEA]; GO:0003678 - DNA helicase activity [Evidence IEA]
GO process: GO:0006260 - DNA replication [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: DnaB-like helicase C-terminal domain-containing protein
translation: MTSSQEEKEYLDAEFFVLGQAINYTENAQAIVSRLSEEHFSFYNHKKIFGFIKILLRKRETVSIALLWEEIKQQNYDTQLDVSYLIQMSQSADISIDLNHHIDFLHEKHTNNLLKEFLDTSYNDFTRYPNRRSPFTLIDQFKEHLDVIHSKISHPRRNFIGKTVYNILKGDFQTPGLLEKIRAIHAYKLENKKDFIDGLLTGYAAIDEQSTLLCNGSFVVIAARPSMGKTAFAIDIALYLSLEQKKSVGFISLEMNPGQIVERMISNLSEISCEQLKRGSFSTNALGKIEAISAAMQGANFFICDGKCSELKSLIDQARVLKDIYNINVLFIDYIQLIRSDKRNENRQNEIAEISRSLRALATELEIPIVCLSQLSRKVEDRSEKRPLLSDLRDSGQIEQDADVILLLYRKDYYSQEATKGLAEVIIGKNRHGAVFSAHLIFNSSIGKFYNQKEAW
SIO_010081: Cs308_RS04885
subclass of: SO_0000673
so part of: Cs308_RS04885
location: complement(join(6815..7504,1..681))
location: region:1-7504:-1
so has part: feature:1-681:-1:exon
so has part: feature:6815-7504:-1:exon

WP_231881976.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-681:-1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:6815-7504:-1:exon

Cs308_RS04890
type: Gene
subclass of: SO_0000704
RO_0002162: 1806891
locus tag: Cs308_RS04890
old locus tag: Cs308_1004
so part of: sequence
location: 801..1793
location: region:801-1793:1
so has part: feature:801-1793:1:exon
subclass of: SO_0000010

position:801:1
position: 801
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1793:1
position: 1793
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:801-1793:1:exon

Cs308_RS04890
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1806891
locus tag: Cs308_RS04890
old locus tag: Cs308_1004
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011109753.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: site-specific integrase
translation: MSLHNNLTHILKQTLPDNVSHHEVQRVKIEYIWGELKKITLEEAISTWITSLNSHTARSYKGAMLALSKLGFLSLTMSLQEFSLLNHNIIIDSIKQLPTEIIPWSEGTKQVRAACYISLTKFLHRATSGLINIAQPSHQESTKTFYKVRDLVKTHAMNRENKQLFLTKLKTINYRDWLIAQAILQGAKRVSEVLILTTNQISFQDGTISFFQTKSRGLEKITVITYPQRFMNLLSLYIKNRSGIVFITKPGKSVGLKQVASSFAKAGKLAGILFKVTPHVLRVTAVTEYKHFGCSDSDIMKITGHSSSKMIYAYDKSARSNNASQKITLI
SIO_010081: Cs308_RS04890
subclass of: SO_0000673
so part of: Cs308_RS04890
location: 801..1793
location: region:801-1793:1
so has part: feature:801-1793:1:exon

WP_231881977.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:801-1793:1:exon

Cs308_RS04895
type: Gene
subclass of: SO_0000704
RO_0002162: 1806891
locus tag: Cs308_RS04895
old locus tag: Cs308_1005
so part of: sequence
location: complement(1817..2740)
location: region:1817-2740:-1
so has part: feature:1817-2740:-1:exon
subclass of: SO_0000010

position:1817:-1
position: 1817
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2740:-1
position: 2740
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1817-2740:-1:exon

Cs308_RS04895
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1806891
locus tag: Cs308_RS04895
old locus tag: Cs308_1005
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: MSNLSHFHRSRLFLTVFEATSVWLATLSPITGKNYSSGIKFLVANGILNPLMKLEDLTCVDHSDILYKIKSLTHTHNGKSISEASRQARAACYISFTKFLCRLTKGMIKQAVPSRDFGSATFYKIRDKVKTEFISKREWLLFCDSLKKISYRDYLIGKLIIQGVRKLSEVVSVRTEDVSFSQNRISFKIKKRQNRIREVKVTYPTFLMEELKEYIGSREGWVFVSDEGQRVAINQIYYYFKLAENDIQLPVKVTPHVLRASALAYLKRSGFADVDIMRISCLSSPEMMLAYDSLSETNLTTQLPLIF
SIO_010081: Cs308_RS04895
subclass of: SO_0000673
so part of: Cs308_RS04895
location: complement(1817..2740)
location: region:1817-2740:-1
so has part: feature:1817-2740:-1:exon

WP_197481314.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1817-2740:-1:exon

Cs308_RS04900
type: Gene
subclass of: SO_0000704
RO_0002162: 1806891
locus tag: Cs308_RS04900
old locus tag: Cs308_1006
so part of: sequence
location: complement(2973..3710)
location: region:2973-3710:-1
so has part: feature:2973-3710:-1:exon
subclass of: SO_0000010

position:2973:-1
position: 2973
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3710:-1
position: 3710
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2973-3710:-1:exon

Cs308_RS04900
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1806891
locus tag: Cs308_RS04900
old locus tag: Cs308_1006
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006343673.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: CT583 family protein
translation: MNKLVKEAALFFQKNQKSLEEEFQKKNMSESTFIVSLNPNESEQLNNLFVDEVASSCKDYSKILHSIKTLTCQIKSIQKQHVLLIGEKIYKARKLFQILGSSEGTFSSWIDLVFHTKSSAYNALAYYELFINLPNKESQCLLQSIPYKAAYLLASRKGPIGDKITVIKKIQGLSNTAAIALLNKYLPSLREAHSDCLDSEVLANKLISNKLLDLLKIVSCDVRLSPYNLNLLQQLFNSTIQEKDK
SIO_010081: Cs308_RS04900
subclass of: SO_0000673
so part of: Cs308_RS04900
location: complement(2973..3710)
location: region:2973-3710:-1
so has part: feature:2973-3710:-1:exon

WP_066483514.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2973-3710:-1:exon

Cs308_RS04905
type: Gene
subclass of: SO_0000704
RO_0002162: 1806891
locus tag: Cs308_RS04905
old locus tag: Cs308_1007
so part of: sequence
location: complement(3728..4492)
location: region:3728-4492:-1
so has part: feature:3728-4492:-1:exon
subclass of: SO_0000010

position:3728:-1
position: 3728
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4492:-1
position: 4492
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3728-4492:-1:exon

Cs308_RS04905
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1806891
locus tag: Cs308_RS04905
old locus tag: Cs308_1007
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: MKTIVFCSFKGGTGKTTLSLNIGSNLAQYNGKKVLLVDLDPQANLTTGLGIRSTSQYGLDNIFRNTAAIYDVIHSTKIENLDIIPSNILLESLRGINQDVSLTVHHLYLALERVKEKYDVCILDTPPSLGILTQEAFLAATHLVICLTPEPFSILGLQKIKEFCSTVNSGLSLEVLGVVLSFWNERNSTNVTYLNIIESIYKDKILSSKIRRDVALSRALLKETSVSNAYPSSRANKDILSLTKELGNKLFNTQ
SIO_010081: Cs308_RS04905
subclass of: SO_0000673
so part of: Cs308_RS04905
location: complement(3728..4492)
location: region:3728-4492:-1
so has part: feature:3728-4492:-1:exon

WP_066483517.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3728-4492:-1:exon

Cs308_RS04910
type: Gene
subclass of: SO_0000704
RO_0002162: 1806891
locus tag: Cs308_RS04910
old locus tag: Cs308_1008
so part of: sequence
location: complement(4523..4831)
location: region:4523-4831:-1
so has part: feature:4523-4831:-1:exon
subclass of: SO_0000010

position:4523:-1
position: 4523
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4831:-1
position: 4831
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4523-4831:-1:exon

Cs308_RS04910
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1806891
locus tag: Cs308_RS04910
old locus tag: Cs308_1008
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: virulence factor
translation: MYNEQSMKNNFIRIVKDVEKDFPELDIKMKVYKERVTFLNSPAELYHKSISVILNLLNQIELSLNLFPNSPVVEELENNSLKLKKALIMLILSRKDMFSKPE
SIO_010081: Cs308_RS04910
subclass of: SO_0000673
so part of: Cs308_RS04910
location: complement(4523..4831)
location: region:4523-4831:-1
so has part: feature:4523-4831:-1:exon

WP_066483519.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4523-4831:-1:exon

Cs308_RS04915
type: Gene
subclass of: SO_0000704
RO_0002162: 1806891
gene: pgp3
locus tag: Cs308_RS04915
old locus tag: Cs308_1009
so part of: sequence
location: complement(4932..5726)
location: region:4932-5726:-1
so has part: feature:4932-5726:-1:exon
subclass of: SO_0000010

position:4932:-1
position: 4932
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5726:-1
position: 5726
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4932-5726:-1:exon

Cs308_RS04915
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1806891
gene: pgp3
locus tag: Cs308_RS04915
old locus tag: Cs308_1009
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: MGNSGFYLQDTQNSVFADNIRLGQMTTILKKDEIIIGTDALPTVTKFSGSDGITITTDSNSTLPMTTKFSLDMDIISKAVLEKIIDELVSDIVKNITQSLIEEILQRIHTDPIFSFSRAFKTIEINKSIQCNGLFTKENVNTLVGGTEIATFSVVPENPNSMFIICADIVVSRMEGTVVSALVKEGDTKPNAISYGYSAGYPNVCSLRTTVPNITTAPVNFSLRIGGMDSGVVWVNAMPNGDKILDTNTISKIIVLEVIPQTNG
SIO_010081: Cs308_RS04915
subclass of: SO_0000673
so part of: Cs308_RS04915
location: complement(4932..5726)
location: region:4932-5726:-1
so has part: feature:4932-5726:-1:exon

WP_066483522.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4932-5726:-1:exon

Cs308_RS04920
type: Gene
subclass of: SO_0000704
RO_0002162: 1806891
locus tag: Cs308_RS04920
old locus tag: Cs308_1010
so part of: sequence
location: complement(5784..6821)
location: region:5784-6821:-1
so has part: feature:5784-6821:-1:exon
subclass of: SO_0000010

position:5784:-1
position: 5784
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6821:-1
position: 6821
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5784-6821:-1:exon

Cs308_RS04920
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1806891
locus tag: Cs308_RS04920
old locus tag: Cs308_1010
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: virulence factor
translation: MVKTDHQIIRSSLHLENQKFGRKPRTIDNQLDFLTSVCTESKIEVIGLDLQPSHYHALAAIQRLLSATNYRGNAEGSYLSRETNTFKFEGIIPRIKFSKAEYLEAYGVKKYKTARNKQEFGGKEALISLEALYHLGNEPHLIVATRKRWNKGEEVVDRYQTFSPILRICEGWEGLTPKENKALDEGPFLNLISTKHKGFIIEPCPIIVDQIDSYFVLKPANMYQEIKLRFPNASKFTYTFLDWIVSTATRKKMSNPNIKEWPDKLEIGFENLSYTLRMNRYITSRNWKKIEIAINRCIEIAIELKWLIRHERIQGKTISKKEVFFLNKGKFQKISTDRTISTNIN
SIO_010081: Cs308_RS04920
subclass of: SO_0000673
so part of: Cs308_RS04920
location: complement(5784..6821)
location: region:5784-6821:-1
so has part: feature:5784-6821:-1:exon

WP_066483524.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5784-6821:-1:exon