Chlamydia muridarum str. Nigg plasmid pMoPn, complete sequence.
type: Entry
definition: Chlamydia muridarum str. Nigg plasmid pMoPn, complete sequence.
sequence version: NC_002182.1
sequence date: 2023-02-22
sequence: sequence
division: CON
label: NC_002182.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN02603994
keyword: RefSeq
source: Chlamydia muridarum str. Nigg
organism: Chlamydia muridarum str. Nigg
taxonomy: Bacteria; Chlamydiota; Chlamydiia; Chlamydiales; Chlamydiaceae; Chlamydia/Chlamydophila group; Chlamydia.
reference: 1
references: 10684935
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nAE002162.1.\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 :: 02/22/2023 13:32:48\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) :: 942\nCDSs (total) :: 896\nGenes (coding) :: 890\nCDSs (with protein) :: 890\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) :: 6\nCDSs (without protein) :: 6\nPseudo Genes (ambiguous residues) :: 0 of 6\nPseudo Genes (frameshifted) :: 4 of 6\nPseudo Genes (incomplete) :: 0 of 6\nPseudo Genes (internal stop) :: 3 of 6\nPseudo Genes (multiple problems) :: 1 of 6\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 7501
topology: circular
so has quality: SO_0000988
location: 1..7501
location: region:1-7501:1
RO_0002162: 243161

NC_002182
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN02603994
type: BioSample
SIO_000068: biosample

1
title: Genome sequences of Chlamydia trachomatis MoPn and Chlamydia pneumoniae AR39
author: Read, T.D.
author: Brunham, R.C.
author: Shen, C.
author: Gill, S.R.
author: Heidelberg, J.F.
author: White, O.
author: Hickey, E.K.
author: Peterson, J.
author: Utterback, T.
author: Berry, K.
author: Bass, S.
author: Linher, K.
author: Weidman, J.
author: Khouri, H.
author: Craven, B.
author: Bowman, C.
author: Dodson, R.
author: Gwinn, M.
author: Nelson, W.
author: DeBoy, R.
author: Kolonay, J.
author: McClarty, G.
author: Salzberg, S.L.
author: Eisen, J.
author: Fraser, C.M.
journal: Nucleic Acids Res
volume: 28
issue: 6
pages: 1397-1406
year: 2000
pubmed: 10684935

10684935
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Read, T.D.
author: Brunham, R.
author: Shen, C.
author: Gill, S.R.
author: Heidelberg, J.F.
author: White, O.
author: Hickey, E.K.
author: Peterson, J.
author: Umayam, L.A.
author: Utterback, T.
author: Berry, K.
author: Bass, S.
author: Linher, K.
author: Weidman, J.
author: Khouri, H.
author: Craven, B.
author: Bowman, C.
author: Dodson, R.
author: Gwinn, M.
author: Nelson, W.
author: DeBoy, R.
author: Kolonay, J.
author: McClarty, G.
author: Salzberg, S.L.
author: Eisen, J.
author: Fraser, C.M.
journal: Submitted (29-FEB-2000) The Institute for Genomic Research, 9712 Medical Center Dr, Rockville, MD 20850, USA

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

position:7501:1
position: 7501
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-7501:1:source
so part of: sequence
organism: Chlamydia muridarum str. Nigg
mol type: genomic DNA
strain: Nigg
type material: type strain of Chlamydia muridarum
plasmid: pMoPn

243161
type: Taxonomy
SIO_000068: taxonomy

TC_RS04700
type: Gene
subclass of: SO_0000704
RO_0002162: 243161
locus tag: TC_RS04700
old locus tag: TC_A01
old locus tag: TCA01
so part of: sequence
location: 98..1015
location: region:98-1015:1
so has part: feature:98-1015:1:exon
subclass of: SO_0000010

1245522
type: Gene
SIO_000068: ncbigene

position:98:1
position: 98
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1015:1
position: 1015
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:98-1015:1:exon

TC_RS04700
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 243161
locus tag: TC_RS04700
old locus tag: TC_A01
old locus tag: TCA01
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010231978.1
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: 1
transl table: 11
product: tyrosine-type recombinase/integrase
translation: MNSKFYHRSRLFLTFGEASEIWLSTLSPLTRKNYASGIKFLVSLKVLDLTKTLDNAISFDHSESLFKIKSLTIFNGKPVSEASKQARAACYISFTKFLYRLTKGYINPAIPLKDFGNTTFFKIRDRVKTVSISKKEWTVFFEALRLVSYRDYLIGKLIVQGIRKLDEILSLCMEDLFFASNQISFRIKKRQNKEINIPITFPFSLMKELKDYVGGRNGRVFISEDGSPIATSQVVHNFKIAALRSAMTTKITPRVLRASALIHLKQMGLRDEEIMRVSCLSSKQSLCSYVCSGGNSSVANIPTIL
SIO_010081: TC_RS04700
subclass of: SO_0000673
so part of: TC_RS04700
location: 98..1015
location: region:98-1015:1
so has part: feature:98-1015:1:exon

WP_010231978.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:98-1015:1:exon

TC_RS04705
type: Gene
subclass of: SO_0000704
RO_0002162: 243161
locus tag: TC_RS04705
old locus tag: TC_A02
old locus tag: TCA02
so part of: sequence
location: complement(1064..2056)
location: region:1064-2056:-1
so has part: feature:1064-2056:-1:exon
subclass of: SO_0000010

1245521
type: Gene
SIO_000068: ncbigene

position:1064:-1
position: 1064
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2056:-1
position: 2056
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1064-2056:-1:exon

TC_RS04705
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 243161
locus tag: TC_RS04705
old locus tag: TC_A02
old locus tag: TCA02
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: MGKGILSLQQEMPLEYIGKSYQEVLKIRQESYWKRMRSFSLFEVIMHWTASLNQHTCRSYRGSFLALEKIGLLSLDMNLQEFSLLNHNLILDAIKKIPSSKASWTEGTKQVRAASYISLTRFLNRMTQGIVSIAQPSKQENSRTFFKTREIVKTNAMNRLQTASFLKELKKINPRDWLIAQTMLQGGKRSSEVLSLEIDQICFQQATISFSQLKNRQTEKRIIITYPQKFMHALREYIGPRRGLVFVTSSGKMVGLRQIARTFSQAGLQASIPFKITPHVLRATAVTEYKRLGCSDSDIMKVTGHTTAKMVFAYDKSSREDNASKKMALI
SIO_010081: TC_RS04705
subclass of: SO_0000673
so part of: TC_RS04705
location: complement(1064..2056)
location: region:1064-2056:-1
so has part: feature:1064-2056:-1:exon

WP_010231981.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1064-2056:-1:exon

TC_RS04710
type: Gene
subclass of: SO_0000704
RO_0002162: 243161
locus tag: TC_RS04710
old locus tag: TC_A03
old locus tag: TCA03
so part of: sequence
location: 2154..3509
location: region:2154-3509:1
so has part: feature:2154-3509:1:exon
subclass of: SO_0000010

1245519
type: Gene
SIO_000068: ncbigene

position:2154:1
position: 2154
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3509:1
position: 3509
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2154-3509:1:exon

TC_RS04710
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 243161
locus tag: TC_RS04710
old locus tag: TC_A03
old locus tag: TCA03
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012718306.1
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: replicative DNA helicase
translation: MKTNSEIENRMQDIEYALLGKALVFEDCTEYILRQLVNYEFKCSRHKNIFIVFKHLKDNALPITVDSAWEELLRRRVKDIDKSYLGIMLHDAMFNDKLRPISHTVLLDDLSVCSAEENLTNFIFRSFNEYNENPLRRSPFLLLDRIKDRLDRTIAKTFSTRSVRGRSVYDIFSQAELGVLARIKKRRAAYSENNDSFYDGLPTGYQDIDSKGVILANGNFVIIAARPSIGKTALAIDIAINIAIHQRRRVGFLSLEMSAGQIVERIISNLTGVSGEKLQRGSLSEEEIFCIEEAGNTIRDSHLYICSDNQYKLNLIANQIRLLKRDDRVDVIFIDYLQLINSSVGENRQNEIADISRTLRGLAAELNIPIVCLSQLSRKVEDRANKVPMLSDLRDSGQIEQDADVILFINRKETSPNCEITVGKNRHGSVFSTVLQFDPKTSKFSAIKKVW
SIO_010081: TC_RS04710
subclass of: SO_0000673
so part of: TC_RS04710
location: 2154..3509
location: region:2154-3509:1
so has part: feature:2154-3509:1:exon

WP_010231984.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2154-3509:1:exon

TC_RS04715
type: Gene
subclass of: SO_0000704
RO_0002162: 243161
locus tag: TC_RS04715
so part of: sequence
location: 3503..4564
location: region:3503-4564:1
so has part: feature:3503-4564:1:exon
subclass of: SO_0000010

23334638
type: Gene
SIO_000068: ncbigene

position:3503:1
position: 3503
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4564:1
position: 4564
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3503-4564:1:exon

TC_RS04715
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 243161
locus tag: TC_RS04715
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010231986.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: Virulence plasmid protein pGP2-D
translation: MVNYSNCHFIRSPIHLENQKFGRRPGQLIKISPKLAQNGLVEVIGLDFLSSHYHALAAIQRLLTATNYKGNTKGVVLSRESNSFQFEGWIPRIRFTKTEFLEAYGVKRYKTSRNKYEFSGKESETALEALYHLGHQPFLIVATRTRWNNGTPILDRYQTLSPIIRIYEGWEGLTDEENTEIDVTPFNSPSTRKHKGFIVEPCPILVDQIDSYFVVKPANVYQEIKMRFPNASRYAYTFIDWIITASAKKKRKLTKENSWPENLSLNVNVKSLAYILRMNRYISTRNWKKIEMAIDKCVEIAIQLGWLSSRKRVEFLEASKLSKKEILYLNKERFEEITRKSKEQMNQFEQEFN
SIO_010081: TC_RS04715
subclass of: SO_0000673
so part of: TC_RS04715
location: 3503..4564
location: region:3503-4564:1
so has part: feature:3503-4564:1:exon

WP_010231986.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3503-4564:1:exon

TC_RS04720
type: Gene
subclass of: SO_0000704
RO_0002162: 243161
gene: pgp3
locus tag: TC_RS04720
old locus tag: TC_A04
old locus tag: TCA04
so part of: sequence
location: 4631..5425
location: region:4631-5425:1
so has part: feature:4631-5425:1:exon
subclass of: SO_0000010

1245520
type: Gene
SIO_000068: ncbigene

position:4631:1
position: 4631
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5425:1
position: 5425
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4631-5425:1:exon

TC_RS04720
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 243161
gene: pgp3
locus tag: TC_RS04720
old locus tag: TC_A04
old locus tag: TCA04
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010231988.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: virulence factor Pgp3
translation: MGNSGFYLHNTSNCVFADNIKVGQMTEPLTDQQIILGTSTTPVAAKITASEGISLTITNNAQANSSVNIGLDAEKAYQLILDKLGDQIFDGITGSIVESAVQDIIDKITSDPSLGLLKAFYNFQITGKIQCNGLFTSSNVTTLLGGTEIGRFTVTPRSSGSMFLVSADIIASRMEGGVVLALVKEGDTQPCAISYGYSSGVPNLCSLKTCVTNSGSTPTTYSLRIGGLESGVVWVNALSNGNDILGITNTSNVSFLEVIPQKNT
SIO_010081: TC_RS04720
subclass of: SO_0000673
so part of: TC_RS04720
location: 4631..5425
location: region:4631-5425:1
so has part: feature:4631-5425:1:exon

WP_010231988.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4631-5425:1:exon

TC_RS04725
type: Gene
subclass of: SO_0000704
RO_0002162: 243161
locus tag: TC_RS04725
old locus tag: TC_A05
old locus tag: TCA05
so part of: sequence
location: 5494..5802
location: region:5494-5802:1
so has part: feature:5494-5802:1:exon
subclass of: SO_0000010

1245517
type: Gene
SIO_000068: ncbigene

position:5494:1
position: 5494
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5802:1
position: 5802
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5494-5802:1:exon

TC_RS04725
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 243161
locus tag: TC_RS04725
old locus tag: TC_A05
old locus tag: TCA05
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 plasmid protein pGP4-D
translation: MQNKRKLRNDFIKIVKDVEKDFPELDLKIRVNKERVTFLNSPLELYHKSISLILGLLQQIEKSLELFPDSPVLEKLEDNSLKLKKALIMLILSRKDMFSKAE
SIO_010081: TC_RS04725
subclass of: SO_0000673
so part of: TC_RS04725
location: 5494..5802
location: region:5494-5802:1
so has part: feature:5494-5802:1:exon

WP_010231989.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5494-5802:1:exon

TC_RS04730
type: Gene
subclass of: SO_0000704
RO_0002162: 243161
locus tag: TC_RS04730
old locus tag: TC_A06
old locus tag: TCA06
so part of: sequence
location: 5831..6625
location: region:5831-6625:1
so has part: feature:5831-6625:1:exon
subclass of: SO_0000010

1245518
type: Gene
SIO_000068: ncbigene

position:5831:1
position: 5831
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6625:1
position: 6625
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5831-6625:1:exon

TC_RS04730
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 243161
locus tag: TC_RS04730
old locus tag: TC_A06
old locus tag: TCA06
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: MQTLVFCSFKGGTGKTTLSLNVGCNLAQFLGKRVLLIDLDPQSNLSSGLGASIEGNHKGLHEVMCASNDLKSIICKTKKTGVDIIPASFLSEQFREFSTNGIPSSNLRLFLDEYCSPLYDVCIVDTPPSLGGLTKEAFIAGDKLIVCLIPEPFSILGLQKIREFLISIGKPEEEHILGVALSFWDDRSSTNQTYIDIIESIYENKIFSTKIRRDISLSRSLLKEDSVINVYPTSRAATDILNLTHEISALLNSKHKQDFSQRTL
SIO_010081: TC_RS04730
subclass of: SO_0000673
so part of: TC_RS04730
location: 5831..6625
location: region:5831-6625:1
so has part: feature:5831-6625:1:exon

WP_010231990.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5831-6625:1:exon

TC_RS04735
type: Gene
subclass of: SO_0000704
RO_0002162: 243161
locus tag: TC_RS04735
old locus tag: TC_A07
old locus tag: TCA07
so part of: sequence
location: 6622..7362
location: region:6622-7362:1
so has part: feature:6622-7362:1:exon
subclass of: SO_0000010

1245523
type: Gene
SIO_000068: ncbigene

position:6622:1
position: 6622
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7362:1
position: 7362
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6622-7362:1:exon

TC_RS04735
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 243161
locus tag: TC_RS04735
old locus tag: TC_A07
old locus tag: TCA07
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: MNKLEKEASVFFKKNQESVSQDFKKKVSSIEMFSTSLNSEENQSLDRLFLSETQNLSDEESYQEDVLSVKLLTSQIKAIQKQHVLLLGEKIYNARKILSKSCFSSTTFSSWLDLVFRTKSSAYNALAYYELFISLPSTTLQKEFQSIPYKSAYILAARKGDLKTKVSVIGKVCGMSNASAIRVMDQLLPSSRSKDNQRFFESDLEKNRQLSDLLVELLRIVCSGVFLSPYNENLLQQLFEVYKQKS
SIO_010081: TC_RS04735
subclass of: SO_0000673
so part of: TC_RS04735
location: 6622..7362
location: region:6622-7362:1
so has part: feature:6622-7362:1:exon

WP_010231991.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6622-7362:1:exon