Chlamydia suis isolate SWA-86 plasmid II.
type: Entry
definition: Chlamydia suis isolate SWA-86 plasmid II.
sequence version: NZ_LT860210.1
sequence date: 2022-12-19
sequence: sequence
division: CON
label: NZ_LT860210.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMEA103890754
keyword: RefSeq
source: Chlamydia suis
organism: Chlamydia suis
taxonomy: Bacteria; Chlamydiota; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia/Chlamydophila group; Chlamydia.
reference: 1
comment: REFSEQ INFORMATION: The reference sequence is identical to\nLT860210.1.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/19/2022 12:43:38\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) :: 954\nCDSs (total) :: 908\nGenes (coding) :: 895\nCDSs (with protein) :: 895\nGenes (RNA) :: 46\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 37\nncRNAs :: 3\nPseudo Genes (total) :: 13\nCDSs (without protein) :: 13\nPseudo Genes (ambiguous residues) :: 0 of 13\nPseudo Genes (frameshifted) :: 8 of 13\nPseudo Genes (incomplete) :: 6 of 13\nPseudo Genes (internal stop) :: 3 of 13\nPseudo Genes (multiple problems) :: 3 of 13\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000155
sequence length: 7494
topology: linear
so has quality: SO_0000987
location: 1..7494
location: region:1-7494:1
RO_0002162: 83559

NZ_LT860210
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMEA103890754
type: BioSample
SIO_000068: biosample

1
title: Direct Submission
author: Seth-Smith MB, H.
journal: Submitted (03-MAR-2017) Functional Genomics Genter Zurich, University Hospital Basel, 4056 Basel, Switzerland

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

position:7494:1
position: 7494
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-7494:1:source
so part of: sequence
organism: Chlamydia suis
mol type: genomic DNA
isolate: SWA-86
isolation source: pig
host: Sus scrofa domesticus
plasmid: II
country: Switzerland
collection date: 2015

83559
type: Taxonomy
SIO_000068: taxonomy

CDZ74_RS04845
type: Gene
subclass of: SO_0000704
RO_0002162: 83559
locus tag: CDZ74_RS04845
so part of: sequence
location: complement(70..810)
location: region:70-810:-1
so has part: feature:70-810:-1:exon
subclass of: SO_0000010

66304258
type: Gene
SIO_000068: ncbigene

position:70:-1
position: 70
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:810:-1
position: 810
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:70-810:-1:exon

CDZ74_RS04845
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 83559
locus tag: CDZ74_RS04845
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010231991.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: CT583 family protein
translation: MNKLEKEANVFFKKNQTSASQEFKKKVPSIEMFSIALNSEESQSLDRLFLSDDQALSDEESYQEDVLSVKLLTSQIKAIQKQHVLLLGEKIYNARKILSKSCFSSTTFSSWIDLVFRTKSSAYNALAYYELFISLPSQTLQKEFQSIPYKSAYILAARKGDLDTKVSVIGKVCGMSNASAIRVMDKLLPSSRSKEGREFQESDLEKNRKLSDSLLETLRIVCSGTPLSPYNENLLQQLFEVYKKKS
SIO_010081: CDZ74_RS04845
subclass of: SO_0000673
so part of: CDZ74_RS04845
location: complement(70..810)
location: region:70-810:-1
so has part: feature:70-810:-1:exon

WP_080133275.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:70-810:-1:exon

CDZ74_RS04850
type: Gene
subclass of: SO_0000704
RO_0002162: 83559
locus tag: CDZ74_RS04850
so part of: sequence
location: complement(807..1601)
location: region:807-1601:-1
so has part: feature:807-1601:-1:exon
subclass of: SO_0000010

66304259
type: Gene
SIO_000068: ncbigene

position:807:-1
position: 807
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1601:-1
position: 1601
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:807-1601:-1:exon

CDZ74_RS04850
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 83559
locus tag: CDZ74_RS04850
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010231990.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ParA family protein
translation: MQTLVFCSFKGGTGKTTLSLNVGCNLAQFLGKKVLLVDLDPQSNLSSGLGVGVTNDKKGLHNIVYASSGLKSIVCKTKKPGVDIIPSSFLSEQFRLSSTSIIPKNNLKLFLDEFCASFYDVCIIDTPPSLGGLTKEAFIAGDRLIACLTPEPFSILGLQKIREFLISIGKQDDDHILGIILSFWDDRNSTNRTYIDIIESIYENKTFSTKIRRDVSLSRSLLKEDSVANVYPHSRAAADILSLTYEIANLLHFEHKQDFSQRTL
SIO_010081: CDZ74_RS04850
subclass of: SO_0000673
so part of: CDZ74_RS04850
location: complement(807..1601)
location: region:807-1601:-1
so has part: feature:807-1601:-1:exon

WP_087878015.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:807-1601:-1:exon

CDZ74_RS04855
type: Gene
subclass of: SO_0000704
RO_0002162: 83559
locus tag: CDZ74_RS04855
so part of: sequence
location: complement(1629..1937)
location: region:1629-1937:-1
so has part: feature:1629-1937:-1:exon
subclass of: SO_0000010

66304260
type: Gene
SIO_000068: ncbigene

position:1629:-1
position: 1629
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1937:-1
position: 1937
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1629-1937:-1:exon

CDZ74_RS04855
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 83559
locus tag: CDZ74_RS04855
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: MQNKRKLRNDFIKIVRDVEKDFPELDLKIRVNKERVTFLNSPLELYHKSVSLILSLLQQIENSLGLFPDSPVLEKLEDNSLKLKKALIMLILSRKDMFSKAE
SIO_010081: CDZ74_RS04855
subclass of: SO_0000673
so part of: CDZ74_RS04855
location: complement(1629..1937)
location: region:1629-1937:-1
so has part: feature:1629-1937:-1:exon

WP_035405408.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1629-1937:-1:exon

CDZ74_RS04860
type: Gene
subclass of: SO_0000704
RO_0002162: 83559
gene: pgp3
locus tag: CDZ74_RS04860
so part of: sequence
location: complement(2006..2800)
location: region:2006-2800:-1
so has part: feature:2006-2800:-1:exon
subclass of: SO_0000010

66304261
type: Gene
SIO_000068: ncbigene

position:2006:-1
position: 2006
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2800:-1
position: 2800
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2006-2800:-1:exon

CDZ74_RS04860
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 83559
gene: pgp3
locus tag: CDZ74_RS04860
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014541320.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: virulence factor Pgp3
translation: MGNSGFYLHNTSNCVFADNIKVGQMTEPLTDRQIILGTEKTPVAAKITASDGISLTITNSQQNNASVNIGLDAEKAYQTILDKLGDQIFDGITGSIVDGAAQEILDKITSDPSLGLLKAFNNFRITEKIQCNGLFTPSNIMTLVGGTEIGKFTVTPRSSGSMFLVSADIIASRMEGGVVLALVKEGDSQPCAISYGYSSGVPNLCSLKACVTNSGLTPATYSLRVGGLESGVVWVNALSNGNDILGITNTSNISFLEVIPQTNA
SIO_010081: CDZ74_RS04860
subclass of: SO_0000673
so part of: CDZ74_RS04860
location: complement(2006..2800)
location: region:2006-2800:-1
so has part: feature:2006-2800:-1:exon

WP_087878222.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2006-2800:-1:exon

CDZ74_RS04865
type: Gene
subclass of: SO_0000704
RO_0002162: 83559
locus tag: CDZ74_RS04865
so part of: sequence
location: complement(2860..3924)
location: region:2860-3924:-1
so has part: feature:2860-3924:-1:exon
subclass of: SO_0000010

66304262
type: Gene
SIO_000068: ncbigene

position:2860:-1
position: 2860
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3924:-1
position: 3924
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2860-3924:-1:exon

CDZ74_RS04865
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 83559
locus tag: CDZ74_RS04865
inference: COORDINATES: similar to AA sequence:RefSeq:WP_015506342.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MVNYSNCHFIRSPIHLENQKFGRRPGRSIKISPELSKNGLVEVIGLDFLSSHYHALAAIQRLLTATNYKGNTKGVVLSRESNSFQFEGWIPRIKFTKTEFLEAYGVKRYKTSRNKYEFSGKEAETALEALYHLGHQPFLIVATRTRWNNGSQIVDRYQTLSPIIRIYEGWEGLTDEENDDIYLTPFNSPSTRKHKGFVVEPCPILVDQIDSYFVVKPANVYQEIKMRFPNASKYAYTFIDWIITAAAKKKRKITRDNSWPENMFLNVSVKSLAYILRMNRYIITRNWKKIELAVDRCIEIAIQLGWLSRRKQIEFMDSSKLSRKEILYLNKERFEEITKQSKEQMEQIEQTAHN
SIO_010081: CDZ74_RS04865
subclass of: SO_0000673
so part of: CDZ74_RS04865
location: complement(2860..3924)
location: region:2860-3924:-1
so has part: feature:2860-3924:-1:exon

WP_035405411.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2860-3924:-1:exon

CDZ74_RS04870
type: Gene
subclass of: SO_0000704
RO_0002162: 83559
locus tag: CDZ74_RS04870
so part of: sequence
location: complement(3918..5273)
location: region:3918-5273:-1
so has part: feature:3918-5273:-1:exon
subclass of: SO_0000010

66304263
type: Gene
SIO_000068: ncbigene

position:3918:-1
position: 3918
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5273:-1
position: 5273
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3918-5273:-1:exon

CDZ74_RS04870
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 83559
locus tag: CDZ74_RS04870
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012718306.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replicative DNA helicase
translation: MKTESEIVRRMQDIEYALLGKALVFEDCTEYVLRQLANYEFKCSHHKNIFRVFKYLKDNSLPISIDSTWEELLRRNIKDIDKSYLGLMLHDALFEEKLRSVSHTVLLDDLSVCSAEENLSNFIFHSFNEYNENPLRRSPFLLLDRIKDRLDKTIAKTFSIRSARGRSIYDIFSQAETGVLARIKKRRTAFSEKQDAFYDGLPTGYQDIDSKGVVLANGNFVIIAARPSIGKTALAIDLAINIAIHQQRRVGFLSLEMSSGQIVERIIANLTGISGEKLQRGDLSQEELFCVEEAGETVRESHFYICSDNQYKLNLIVNQIRLLRREDRVDVIFIDYLQLINSSTGENRQNEIADISRTLRGLASELNIPIVCLSQLSRKIEDRANKVPLLSDLRDSGQIEQDADVILFINRKESSSNCEITVGKNRHGSVFSVVLQFDPKISKFSAIKKIW
SIO_010081: CDZ74_RS04870
subclass of: SO_0000673
so part of: CDZ74_RS04870
location: complement(3918..5273)
location: region:3918-5273:-1
so has part: feature:3918-5273:-1:exon

WP_087878223.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3918-5273:-1:exon

CDZ74_RS04875
type: Gene
subclass of: SO_0000704
RO_0002162: 83559
locus tag: CDZ74_RS04875
so part of: sequence
location: 5371..6363
location: region:5371-6363:1
so has part: feature:5371-6363:1:exon
subclass of: SO_0000010

66304264
type: Gene
SIO_000068: ncbigene

position:5371:1
position: 5371
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6363:1
position: 6363
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5371-6363:1:exon

CDZ74_RS04875
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 83559
locus tag: CDZ74_RS04875
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010231981.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: site-specific integrase
translation: MGKGILSLQQEMSLEHCEKSYQEVLKIRQESYWKRMRSFSLFEIIMHWTASLNKHTCRSYRGAFLSLEKIGLLSLDMNLQEFSLLNHNLILDAIKKIPSSKASWTEGTKQVRAASYISLTRFLNRMTQGIVTIAQPSKQENSRTFFKTREIVKTNAMNQSQTVSFLNELKKINTRDWLIAQTMLQGGKRSSEVLSLEINQICFQQATISFSQLKNRQTEKRIIITYPQKFMHSLREYIGPRRGLVFVTSSGKMVGLRQIARTFSQAGLQASIPFKITPHVLRATAVTEYKRLGCSDSDIMKVTGHATAKMIFAYDKSSREDNASKKMALI
SIO_010081: CDZ74_RS04875
subclass of: SO_0000673
so part of: CDZ74_RS04875
location: 5371..6363
location: region:5371-6363:1
so has part: feature:5371-6363:1:exon

WP_087878224.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5371-6363:1:exon

CDZ74_RS04880
type: Gene
subclass of: SO_0000704
RO_0002162: 83559
locus tag: CDZ74_RS04880
so part of: sequence
location: complement(6413..7327)
location: region:6413-7327:-1
so has part: feature:6413-7327:-1:exon
subclass of: SO_0000010

66304265
type: Gene
SIO_000068: ncbigene

position:6413:-1
position: 6413
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:7327:-1
position: 7327
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6413-7327:-1:exon

CDZ74_RS04880
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 83559
locus tag: CDZ74_RS04880
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010231978.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: site-specific integrase
translation: MDSRVCHRSRLFLTFGDAAEIWLSTLSPLTRKNYASGIKFLVSLEIFDLTETLEKAISFDHNESLFKIKSTTVFNGKVFSEASKQARAACYISFTKFLCRLTKGYIKPAIPSKEFGNTTFFKIRDKVKTVSISKREWTIFFDALRLVNYRDYLIGKLIVQGVRKLDEILSLRKDDIFFASNQIAFRIKKRQNKEVNVLITFPFSLIEELKEYVGKRNGFVFISEDGSPTTTSQVAHNFKIAALRSAMTTKITPRVLRASALIYLKQIGLRDEEIMRVSCLSSRQSLCSYACSGGSSILCLPNML
SIO_010081: CDZ74_RS04880
subclass of: SO_0000673
so part of: CDZ74_RS04880
location: complement(6413..7327)
location: region:6413-7327:-1
so has part: feature:6413-7327:-1:exon

WP_035405414.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6413-7327:-1:exon