Paracoccus sanguinis strain OM2164 plasmid pPspOM7, complete sequence.
type: Entry
definition: Paracoccus sanguinis strain OM2164 plasmid pPspOM7, complete sequence.
sequence version: NZ_CP051545.1
sequence date: 2023-04-28
sequence: sequence
division: CON
label: NZ_CP051545.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN14591402
keyword: RefSeq
source: Paracoccus sanguinis
organism: Paracoccus sanguinis
taxonomy: Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Paracoccaceae; Paracoccus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP051545.1.\nBacteria and source DNA available from NEB microbial collection\n1783.\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 Date :: MAR-2017\nAssembly Method :: HGAP v. 2.3.0\nAssembly Name :: PspOM_new_HGAP3_2\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 164.22x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/28/2023 10:59:31\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) :: 3,248\nCDSs (total) :: 3,190\nGenes (coding) :: 3,116\nCDSs (with protein) :: 3,116\nGenes (RNA) :: 58\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 4\nPseudo Genes (total) :: 74\nCDSs (without protein) :: 74\nPseudo Genes (ambiguous residues) :: 0 of 74\nPseudo Genes (frameshifted) :: 21 of 74\nPseudo Genes (incomplete) :: 60 of 74\nPseudo Genes (internal stop) :: 2 of 74\nPseudo Genes (multiple problems) :: 9 of 74\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 6587
topology: circular
so has quality: SO_0000988
location: 1..6587
location: region:1-6587:1
RO_0002162: 1545044

NZ_CP051545
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN14591402
type: BioSample
SIO_000068: biosample

1
title: Genome-Wide Identification of 5-Methylcytosine Sites in Bacterial Genomes By High-Throughput Sequencing of MspJI Restriction Fragments
author: Wu, V.
journal: Unpublished

2
title: Direct Submission
author: Fomenkov, A.
author: Anton, B.P.
author: Roberts, R.J.
journal: Submitted (13-APR-2020) Genome Biology, NEB, 240 County Rd, Ipswich, MA 01938, USA

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

position:6587:1
position: 6587
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-6587:1:source
so part of: sequence
organism: Paracoccus sanguinis
mol type: genomic DNA
strain: OM2164
plasmid: pPspOM7

1545044
type: Taxonomy
SIO_000068: taxonomy

HGN31_RS16195
type: Gene
subclass of: SO_0000704
RO_0002162: 1545044
locus tag: HGN31_RS16195
old locus tag: HGN31_16190
so part of: sequence
location: 363..791
location: region:363-791:1
so has part: feature:363-791:1:exon
subclass of: SO_0000010

position:363:1
position: 363
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:791:1
position: 791
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:363-791:1:exon

HGN31_RS16195
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1545044
locus tag: HGN31_RS16195
old locus tag: HGN31_16190
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: MDPDTGEVVGQSIIHVIEEKDEEHFVKVFADGVRAAYDLTRTGARVFQAVLAEYQRAKMTGGYSDSVNLIWFDEGLNGRALDMSDRTFHNGLKELIQKGFLKPKLPNQFWVNPALFFKGDRVAFLREYRLKTSQQQIEGAGR
SIO_010081: HGN31_RS16195
subclass of: SO_0000673
so part of: HGN31_RS16195
location: 363..791
location: region:363-791:1
so has part: feature:363-791:1:exon

WP_244961245.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:363-791:1:exon

HGN31_RS16615
type: Gene
subclass of: SO_0000704
RO_0002162: 1545044
locus tag: HGN31_RS16615
so part of: sequence
location: 1043..1279
location: region:1043-1279:1
so has part: feature:1043-1279:1:exon
subclass of: SO_0000010

position:1043:1
position: 1043
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1279:1
position: 1279
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1043-1279:1:exon

HGN31_RS16615
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1545044
locus tag: HGN31_RS16615
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: MGRTEADWSTLANNLETARLTIAQMEARLEERAALVRAAEADRDRWRTLAEKLTDRPAVPLADPPALLPRKTWRWPWS
SIO_010081: HGN31_RS16615
subclass of: SO_0000673
so part of: HGN31_RS16615
location: 1043..1279
location: region:1043-1279:1
so has part: feature:1043-1279:1:exon

WP_244961246.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1043-1279:1:exon

HGN31_RS16205
type: Gene
subclass of: SO_0000704
RO_0002162: 1545044
locus tag: HGN31_RS16205
old locus tag: HGN31_16200
so part of: sequence
location: 1708..2322
location: region:1708-2322:1
so has part: feature:1708-2322:1:exon
subclass of: SO_0000010

position:1708:1
position: 1708
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2322:1
position: 2322
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1708-2322:1:exon

HGN31_RS16205
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1545044
locus tag: HGN31_RS16205
old locus tag: HGN31_16200
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: MAEIRHRIDVINKVLSELETGSSLTSYREIDIEVIFLQLRHCLELIMFASLSAHYHYGYELSQKILKKEYNATKLLRFIKTKNPSFYPSPAETKPIKHPNGLFEAVPITEGFLTQDDFCRLYDQACGWMLHAQRDNKFNKGHEELIKEATEYRNKLVRLIDCHWISLTDDICLQVLMRHPTTGTVLVMVMQSAESINREIRASG
SIO_010081: HGN31_RS16205
subclass of: SO_0000673
so part of: HGN31_RS16205
location: 1708..2322
location: region:1708-2322:1
so has part: feature:1708-2322:1:exon

WP_168784098.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1708-2322:1:exon

HGN31_RS16210
type: Gene
subclass of: SO_0000704
RO_0002162: 1545044
locus tag: HGN31_RS16210
old locus tag: HGN31_16205
pseudo: true
so part of: sequence
location: 2508..3280
location: region:2508-3280:1
so has part: feature:2508-3280:1:exon
subclass of: SO_0000010

position:2508:1
position: 2508
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3280:1
position: 3280
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2508-3280:1:exon

HGN31_RS16210
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1545044
locus tag: HGN31_RS16210
old locus tag: HGN31_16205
inference: COORDINATES: similar to AA sequence:RefSeq:WP_028710025.1
GO function: GO:0004803 - transposase activity [Evidence IEA]
note: frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: IS5 family transposase
SIO_010081: HGN31_RS16210
subclass of: SO_0000673
so part of: HGN31_RS16210
location: 2508..3280
location: region:2508-3280:1
so has part: feature:2508-3280:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:2508-3280:1:exon

HGN31_RS16215
type: Gene
subclass of: SO_0000704
RO_0002162: 1545044
gene: mobQ
locus tag: HGN31_RS16215
old locus tag: HGN31_16210
so part of: sequence
location: complement(3812..4876)
location: region:3812-4876:-1
so has part: feature:3812-4876:-1:exon
subclass of: SO_0000010

position:3812:-1
position: 3812
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4876:-1
position: 4876
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3812-4876:-1:exon

HGN31_RS16215
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1545044
gene: mobQ
locus tag: HGN31_RS16215
old locus tag: HGN31_16210
inference: COORDINATES: protein motif:HMM:NF041496.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: MobQ family relaxase
translation: MAIYHLRATMISRSAGRSATGAAAYRAGELIHDARTGLDFDYRARSGVTHVEILAPAHAPDWVHDRSELWNRVEAAETRKNSQLAREVRVALPAELSHEQRVALVRDFCQRSFVDRGMVADIALHAPGLTGDERNHHAHILLTTREIAAEGFTAKNRDWNAVAVLEDWREAWAQDSNAALERVGHALRIDHRTLEAQRAEALELAAEAHERGDEAAELAERVRAVALDREPLPQLSLGAWQLKERGIEIAAVRVWQEVRERALEVGRVAQELAGHAREWLGRVAERALEVMEPAPDAWGDFFAEAAGGGLRDDLSRDLDRERHALEQAERTRQLELEHERAAHALRDNGLDHGL
SIO_010081: HGN31_RS16215
subclass of: SO_0000673
so part of: HGN31_RS16215
location: complement(3812..4876)
location: region:3812-4876:-1
so has part: feature:3812-4876:-1:exon

WP_168784099.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3812-4876:-1:exon

HGN31_RS16220
type: Gene
subclass of: SO_0000704
RO_0002162: 1545044
locus tag: HGN31_RS16220
old locus tag: HGN31_16215
so part of: sequence
location: 5030..5281
location: region:5030-5281:1
so has part: feature:5030-5281:1:exon
subclass of: SO_0000010

position:5030:1
position: 5030
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5281:1
position: 5281
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5030-5281:1:exon

HGN31_RS16220
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1545044
locus tag: HGN31_RS16220
old locus tag: HGN31_16215
inference: COORDINATES: similar to AA sequence:RefSeq:WP_009824546.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MARTIDQQIAEAQARLARLRTRAKATETRRKIIVGAIVTSEALKDPKIARWMAATLRKNATREVDQKELTGLLADLDAKAAEA
SIO_010081: HGN31_RS16220
subclass of: SO_0000673
so part of: HGN31_RS16220
location: 5030..5281
location: region:5030-5281:1
so has part: feature:5030-5281:1:exon

WP_168784100.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5030-5281:1:exon

HGN31_RS16225
type: Gene
subclass of: SO_0000704
RO_0002162: 1545044
locus tag: HGN31_RS16225
old locus tag: HGN31_16220
so part of: sequence
location: 5278..5838
location: region:5278-5838:1
so has part: feature:5278-5838:1:exon
subclass of: SO_0000010

position:5278:1
position: 5278
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5838:1
position: 5838
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5278-5838:1:exon

HGN31_RS16225
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1545044
locus tag: HGN31_RS16225
old locus tag: HGN31_16220
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: MSDTPKSPAQVINDLSDQVRLLRQDVTNLTATATTKKEAAALRAAVQASVEEAHDRSAKVLSRAEQVINETHHATLAAARDGATKGVAGLQDEVRAAANRMRLEALKGSRQALYWSGGVFAVAGGLVALGALLGVLGHIWLQGRADARAFGEHPKIFCKGAGGEFMTSPAGDDACVIWLEPPAAGK
SIO_010081: HGN31_RS16225
subclass of: SO_0000673
so part of: HGN31_RS16225
location: 5278..5838
location: region:5278-5838:1
so has part: feature:5278-5838:1:exon

WP_168784101.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5278-5838:1:exon

HGN31_RS16230
type: Gene
subclass of: SO_0000704
RO_0002162: 1545044
locus tag: HGN31_RS16230
old locus tag: HGN31_16225
so part of: sequence
location: complement(5858..6136)
location: region:5858-6136:-1
so has part: feature:5858-6136:-1:exon
subclass of: SO_0000010

position:5858:-1
position: 5858
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6136:-1
position: 6136
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5858-6136:-1:exon

HGN31_RS16230
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1545044
locus tag: HGN31_RS16230
old locus tag: HGN31_16225
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011746830.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: helix-turn-helix domain-containing protein
translation: MSSFGEDLIQAMGEALAHAEGKSPAIFHAPVDPREIRTRAKLTQAQMAPLMGMSLSGYRKWEQGQRRVSGPAAALLRVIEKEPGAVQRALAG
SIO_010081: HGN31_RS16230
subclass of: SO_0000673
so part of: HGN31_RS16230
location: complement(5858..6136)
location: region:5858-6136:-1
so has part: feature:5858-6136:-1:exon

WP_168784102.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5858-6136:-1:exon

HGN31_RS16235
type: Gene
subclass of: SO_0000704
RO_0002162: 1545044
locus tag: HGN31_RS16235
old locus tag: HGN31_16230
so part of: sequence
location: complement(6133..6471)
location: region:6133-6471:-1
so has part: feature:6133-6471:-1:exon
subclass of: SO_0000010

position:6133:-1
position: 6133
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6471:-1
position: 6471
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6133-6471:-1:exon

HGN31_RS16235
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1545044
locus tag: HGN31_RS16235
old locus tag: HGN31_16230
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011746829.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: type II toxin-antitoxin system RelE/ParE family toxin
translation: MQAVAETPIFTRQTERLFSEDEKRELIDFLAENPLAGDEIPGTGGVRKVRFAASGRGKRGGARVIYYYLDDTMPLYALLAYAKNAKDDMSSEEKRMVASLAAALKAAWKERK
SIO_010081: HGN31_RS16235
subclass of: SO_0000673
so part of: HGN31_RS16235
location: complement(6133..6471)
location: region:6133-6471:-1
so has part: feature:6133-6471:-1:exon

WP_168784103.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6133-6471:-1:exon