Chlamydiifrater phoenicopteri isolate 14-2711_R47 plasmid 1.
type: Entry
definition: Chlamydiifrater phoenicopteri isolate 14-2711_R47 plasmid 1.
sequence version: NZ_LR777659.1
sequence date: 2023-05-07
sequence: sequence
division: CON
label: NZ_LR777659.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMEA6565318
keyword: RefSeq
source: Chlamydiifrater phoenicopteri
organism: Chlamydiifrater phoenicopteri
taxonomy: Bacteria; Chlamydiota; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydiifrater.
reference: 1
comment: REFSEQ INFORMATION: The reference sequence is identical to\nLR777659.1.\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 :: 05/07/2023 04:28:45\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 1,037\nCDSs (total) :: 993\nGenes (coding) :: 973\nCDSs (with protein) :: 973\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) :: 20\nCDSs (without protein) :: 20\nPseudo Genes (ambiguous residues) :: 0 of 20\nPseudo Genes (frameshifted) :: 0 of 20\nPseudo Genes (incomplete) :: 20 of 20\nPseudo Genes (internal stop) :: 0 of 20\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000155
sequence length: 6358
topology: linear
so has quality: SO_0000987
location: 1..6358
location: region:1-6358:1
RO_0002162: 2681469

NZ_LR777659
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMEA6565318
type: BioSample
SIO_000068: biosample

1
title: Direct Submission
author: Vorimore, F.
journal: Submitted (19-FEB-2020) ANSES, Unite des zoonoses bacteriennes, 14 rue Pierre et Marie Curie, Maisons-Alfort, 94700, France

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

position:6358:1
position: 6358
reference: sequence
type: ForwardStrandPosition
type: ExactPosition
type: FuzzyPosition

feature:1-6358:1:source
so part of: sequence
organism: Chlamydiifrater phoenicopteri
mol type: genomic DNA
isolate: 14-2711_R47
isolation source: cloacal swab
host: Phoenicopterus roseus
type material: type strain of Chlamydiifrater phoenicopteri
plasmid: 1
country: France
collection date: 2014-08-06

2681469
type: Taxonomy
SIO_000068: taxonomy

KJA58_RS05155
type: Gene
subclass of: SO_0000704
RO_0002162: 2681469
locus tag: KJA58_RS05155
so part of: sequence
location: <1..361
location: region:1-361:1
so has part: feature:1-361:1:exon
subclass of: SO_0000010

position:361:1
position: 361
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-361:1:exon

KJA58_RS05155
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2681469
locus tag: KJA58_RS05155
inference: COORDINATES: protein motif:HMM:NF012798.2
GO function: GO:0003677 - DNA binding [Evidence IEA]
GO process: GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 2
transl table: 11
product: tyrosine-type recombinase/integrase
translation: MKTIVDKQCIVTFPNRFMQKLLELRDKASYKEYIFSTSSGRKVQKDYIWRQLISISESCNLSYRVTPHVLRATSICMYREYGFSLGDLVEITGHSSIEMVRYYDKNSFKNNPSCKVTLI
SIO_010081: KJA58_RS05155
subclass of: SO_0000673
so part of: KJA58_RS05155
location: <1..361
location: region:1-361:1
so has part: feature:1-361:1:exon

WP_213358401.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-361:1:exon

KJA58_RS05160
type: Gene
subclass of: SO_0000704
RO_0002162: 2681469
locus tag: KJA58_RS05160
so part of: sequence
location: 358..1752
location: region:358-1752:1
so has part: feature:358-1752:1:exon
subclass of: SO_0000010

position:358:1
position: 358
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1752:1
position: 1752
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:358-1752:1:exon

KJA58_RS05160
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2681469
locus tag: KJA58_RS05160
inference: COORDINATES: protein motif:HMM:NF015736.2
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: Protein Homology.
codon start: 1
transl table: 11
product: DnaB-like helicase C-terminal domain-containing protein
translation: MISSKQEKSDVKEIKDHLDVEYFLLGQAVAFYDQARIVAKELEEEHFQRIGHRIIFSAIKSLVLTGKPCNAHFIWEEIRNFRQEDKVDSSYILSMYCDTADVVELYCYIDFLQERLANRRLGDTLLRASKDFHQHFNRKPSKILIEELQESLKKIQRRFFSFVGSKRESISEILFSPERKEDPLMKKIFDRYNYRQKNQKDFPDSLPFGFRFLDENVSILSEGNYVILAARPSVGKTAFSINLATFLSHQKKIPVGFISLEMSKDQIAERILSNLSSIPSESLRRGNFDRVSLEKLEKVSEELRTTPIYVLGDNCSTINSLLDQARRLKEDFGVKIIFIDYIQLVRSGSKFENRQNEVADVSRQIRILSSELKLPIVCLSQLSRRIEERGNKRPIISDLRDSGQIEQDADSVLFLHKKECYENRDIRKTLIELILSKNRHGPVLSGLLNFDVTTGIFYEKNEKW
SIO_010081: KJA58_RS05160
subclass of: SO_0000673
so part of: KJA58_RS05160
location: 358..1752
location: region:358-1752:1
so has part: feature:358-1752:1:exon

WP_213358402.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:358-1752:1:exon

KJA58_RS05165
type: Gene
subclass of: SO_0000704
RO_0002162: 2681469
locus tag: KJA58_RS05165
so part of: sequence
location: 1746..2771
location: region:1746-2771:1
so has part: feature:1746-2771:1:exon
subclass of: SO_0000010

position:1746:1
position: 1746
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2771:1
position: 2771
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1746-2771:1:exon

KJA58_RS05165
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2681469
locus tag: KJA58_RS05165
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014518311.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: virulence factor
translation: MVKNQVIKSSLHLENQKFGRKPILLDKEQLDMFSSIVTESKIEVIGLDLQPSHYHALAAIQKLLTATNYNGNMQSNYLSRETNSFKFEGKVPRIKFSRSEYLEAYGVKKYKTSRNKKEFGGKEALIALQALQHLGSQPHLIIATRKRWEKGVEVVDRYQTFSPIIRIFEGWEGLTLKENEYLEEGNFLNFITTKHRGFIVEPCPILIDQIDSYFILKPANIYQEIKLKFPNASKFTYTFIDWIVSSATRKRISCGKNYDWPEKIEISSENLSYVLRMNRYIASRNWKRIDYSIKRCVDIAIELEWLNKHETLEGKTVSKKEVFYINKEKFHRISKNNHISF
SIO_010081: KJA58_RS05165
subclass of: SO_0000673
so part of: KJA58_RS05165
location: 1746..2771
location: region:1746-2771:1
so has part: feature:1746-2771:1:exon

WP_213358403.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1746-2771:1:exon

KJA58_RS05170
type: Gene
subclass of: SO_0000704
RO_0002162: 2681469
gene: pgp3
locus tag: KJA58_RS05170
so part of: sequence
location: 2820..3617
location: region:2820-3617:1
so has part: feature:2820-3617:1:exon
subclass of: SO_0000010

position:2820:1
position: 2820
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3617:1
position: 3617
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2820-3617:1:exon

KJA58_RS05170
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2681469
gene: pgp3
locus tag: KJA58_RS05170
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: MGDSGFKLSESQNVVFADNIMVGQMKKPLSKNQIILGQDALDQRTTSGPIAAKLIDGAGIKINFPQQNEGDLSFDINAETIKDDVIDKIGDKLTDSISNSLVDKVIGELESNPNFAIKKAFKTYSFSDIVLCDGLFSSSNIKTDSCGTEVCKITITPENVNSAFLVFTNIIASRREGTIVLSLTRSGDDFPKSFGFGYSNGNPNCCQLNTVIYSERKNPITLSLRVGGMDSGPVIINGMSNGDKILGTSVSSTISILEVTPQNNG
SIO_010081: KJA58_RS05170
subclass of: SO_0000673
so part of: KJA58_RS05170
location: 2820..3617
location: region:2820-3617:1
so has part: feature:2820-3617:1:exon

WP_213358404.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2820-3617:1:exon

KJA58_RS05175
type: Gene
subclass of: SO_0000704
RO_0002162: 2681469
locus tag: KJA58_RS05175
so part of: sequence
location: 3694..3993
location: region:3694-3993:1
so has part: feature:3694-3993:1:exon
subclass of: SO_0000010

position:3694:1
position: 3694
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3993:1
position: 3993
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3694-3993:1:exon

KJA58_RS05175
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2681469
locus tag: KJA58_RS05175
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: MHKDNSFQGSFVKIIREVGKDFPELKLKTKISKHSVKILNSPMELYSKSISAILRLTEEIQNSLDYFPDSPLLEQLESNNAKMKKALIMLAFARKEMFS
SIO_010081: KJA58_RS05175
subclass of: SO_0000673
so part of: KJA58_RS05175
location: 3694..3993
location: region:3694-3993:1
so has part: feature:3694-3993:1:exon

WP_213358405.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3694-3993:1:exon

KJA58_RS05180
type: Gene
subclass of: SO_0000704
RO_0002162: 2681469
locus tag: KJA58_RS05180
so part of: sequence
location: 4018..4794
location: region:4018-4794:1
so has part: feature:4018-4794:1:exon
subclass of: SO_0000010

position:4018:1
position: 4018
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4794:1
position: 4794
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4018-4794:1:exon

KJA58_RS05180
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2681469
locus tag: KJA58_RS05180
inference: COORDINATES: protein motif:HMM:NF018290.2
GO function: GO:0005524 - ATP binding [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ParA family protein
translation: MKVITFCSFKGGTGKTTLSANVACYLAEKKNKKVLLIDLDPQANLTTYMWGDSADSFTSSELLVNGWDFDSFVKKTTTKNLSIIPSEITSEVFRNQASGTGSFFQGNLSNVLKKSSNFDFCIIDTPPSLGFLAKEAFLAADGLVVCLSPEPFSVVGLHKIKEFSDSIPNLNIKIFGVAISFWETRNSTNNLYINSVNSVFSGNIPRYLIRRDISFSRAILKEKPVFSVYPNSRASSDIKTLSDGIYKEVFSLSLESIR
SIO_010081: KJA58_RS05180
subclass of: SO_0000673
so part of: KJA58_RS05180
location: 4018..4794
location: region:4018-4794:1
so has part: feature:4018-4794:1:exon

WP_213358406.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4018-4794:1:exon

KJA58_RS05185
type: Gene
subclass of: SO_0000704
RO_0002162: 2681469
locus tag: KJA58_RS05185
so part of: sequence
location: 4799..5506
location: region:4799-5506:1
so has part: feature:4799-5506:1:exon
subclass of: SO_0000010

position:4799:1
position: 4799
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5506:1
position: 5506
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4799-5506:1:exon

KJA58_RS05185
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2681469
locus tag: KJA58_RS05185
inference: COORDINATES: protein motif:HMM:NF015627.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: CT583 family protein
translation: MKKIYEEADQFFKKSKSIVSREFSKNSENSNPEVLDSSESDKISEIFSEVEPVFSKEILLIKQLTGQIKGIQKQGVLLVGEKIFRIREILKEIGCLETSFSKWISLVFPTKSSAYNALAYYELYINLPNQVLKQKFQSIPYKTAYILASRRADIKKKISVMEIIQGMGNENAITTLNQFIPSARNGQTGDKERDPLDYLIYKKAYDLMVLIKKSPKLSTLSKKILREIFLISKNS
SIO_010081: KJA58_RS05185
subclass of: SO_0000673
so part of: KJA58_RS05185
location: 4799..5506
location: region:4799-5506:1
so has part: feature:4799-5506:1:exon

WP_213358407.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4799-5506:1:exon

KJA58_RS05190
type: Gene
subclass of: SO_0000704
RO_0002162: 2681469
locus tag: KJA58_RS05190
so part of: sequence
location: 5847..>6358
location: region:5847-6358:1
so has part: feature:5847-6358:1:exon
subclass of: SO_0000010

position:5847:1
position: 5847
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5847-6358:1:exon

KJA58_RS05190
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2681469
locus tag: KJA58_RS05190
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MLLIDLVNCFLTQLSNEGTRTRYYFCFKKIFRERILSENFTLNELRKLNLNSRLDSILLISSLSKNSKQTCAAAFLSFFKFLCRETSGLIRAPIPQKTGSSKTFSRIREKTVYAPIPKPDLLRFTEKSYQHSLRMGIFVEMAIQSTKRLSELLNAKFSDINWKENTITFST
SIO_010081: KJA58_RS05190
subclass of: SO_0000673
so part of: KJA58_RS05190
location: 5847..>6358
location: region:5847-6358:1
so has part: feature:5847-6358:1:exon

WP_213358408.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5847-6358:1:exon