Borreliella mayonii strain MN14-1539 plasmid cp9, complete sequence.
type: Entry
definition: Borreliella mayonii strain MN14-1539 plasmid cp9, complete sequence.
sequence version: NZ_CP015962.1
sequence date: 2023-03-13
sequence: sequence
division: CON
label: NZ_CP015962.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN04979182
keyword: RefSeq
source: Borreliella mayonii (Borrelia mayonii)
organism: Borreliella mayonii
taxonomy: Bacteria; Spirochaetota; Spirochaetia; Spirochaetales; Borreliaceae; Borreliella.
reference: 1
references: 28030649
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP015962.1.\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 :: HGAP3, SMRTAnalysis v. 2.3.0\nGenome Coverage :: missing\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/13/2023 02:20:09\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) :: 1,302\nCDSs (total) :: 1,262\nGenes (coding) :: 1,178\nCDSs (with protein) :: 1,178\nGenes (RNA) :: 40\nrRNAs :: 2, 1, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 1, 2 (5S, 16S, 23S)\ntRNAs :: 32\nncRNAs :: 3\nPseudo Genes (total) :: 84\nCDSs (without protein) :: 84\nPseudo Genes (ambiguous residues) :: 0 of 84\nPseudo Genes (frameshifted) :: 51 of 84\nPseudo Genes (incomplete) :: 34 of 84\nPseudo Genes (internal stop) :: 29 of 84\nPseudo Genes (multiple problems) :: 24 of 84\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 8307
topology: circular
so has quality: SO_0000988
location: 1..8307
location: region:1-8307:1
RO_0002162: 1674146

NZ_CP015962
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN04979182
type: BioSample
SIO_000068: biosample

1
title: Whole Genome Sequence and Comparative Genomics of the Novel Lyme Borreliosis Causing Pathogen, Borrelia mayonii
author: Kingry, L.C.
author: Batra, D.
author: Replogle, A.
author: Rowe, L.A.
author: Pritt, B.S.
author: Petersen, J.M.
journal: PLoS One 11 (12), e0168994 (2016)
pubmed: 28030649
comments: Publication Status: Online-Only

28030649
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Kingry, L.C.
author: Batra, D.
author: Rowe, L.A.
author: Petersen, J.P.M.
journal: Submitted (27-MAY-2016) Division of Vector-Borne Diseases, Centers for Disease Control and Prevention, 3156 Rampart Rd, Fort Collins, CO 80521, USA

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

position:8307:1
position: 8307
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-8307:1:source
so part of: sequence
organism: Borreliella mayonii
mol type: genomic DNA
strain: MN14-1539
isolation source: Blood
host: Homo sapiens
plasmid: cp9

1674146
type: Taxonomy
SIO_000068: taxonomy

A7X70_RS06410
type: Gene
subclass of: SO_0000704
RO_0002162: 1674146
locus tag: A7X70_RS06410
old locus tag: A7X70_06270
so part of: sequence
location: 154..1272
location: region:154-1272:1
so has part: feature:154-1272:1:exon
subclass of: SO_0000010

position:154:1
position: 154
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1272:1
position: 1272
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:154-1272:1:exon

A7X70_RS06410
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1674146
locus tag: A7X70_RS06410
old locus tag: A7X70_06270
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014540129.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: plasmid maintenance protein
translation: MKNFPNIKTPKTCNNKLQHKLVVLISTLAYINKTHKKYTQKIILYYFNENLKRNGQPPVKLKTMQNYLYKLEKEFKVTTNYHKHLGVNFGTEIYYQLNFSKKDCYQKINEYFQEKKDLRFQNRATRGLKDRFTKNGSVELPECLNNKNNIKEERKIKQIEKYQVRNYFNKCNFLCKKIISIFLTILFNLDIDKDNIIKILKIIKITEIKLLKNKNIHFNKSNLKEKQNKLKEILKNTQKEFEKNEYNPKQLEINLQKIYENYKFKPHFIIENHKYNDLSNIKRKLEKSIERKKENLQKDYQNLKINVFNILIEQLKKDTNIEILKPIIKKYLNNQKKIEYNKVFGIYYCELLELIEHQKSVLSLKELDRKTI
SIO_010081: A7X70_RS06410
subclass of: SO_0000673
so part of: A7X70_RS06410
location: 154..1272
location: region:154-1272:1
so has part: feature:154-1272:1:exon

WP_075552793.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:154-1272:1:exon

A7X70_RS06415
type: Gene
subclass of: SO_0000704
RO_0002162: 1674146
locus tag: A7X70_RS06415
old locus tag: A7X70_06275
so part of: sequence
location: 1282..1833
location: region:1282-1833:1
so has part: feature:1282-1833:1:exon
subclass of: SO_0000010

position:1282:1
position: 1282
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1833:1
position: 1833
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1282-1833:1:exon

A7X70_RS06415
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1674146
locus tag: A7X70_RS06415
old locus tag: A7X70_06275
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010890602.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF226 domain-containing protein
translation: MENSMKIEQIDKKIIKKRKNPFLKKEKENNKTVYHMKVVTDIHKWGIDTKKNACRVSFRELYDQTEIQEIRLYSIKKGDKFLGIFYGYRKPIKNVFVRYTIDGVKKAYSFSKTYYIEFRFKTGSVFCYLKGMRRLIKKEKIDTPYNKALVDRLMDLEKHVYEFYNKKYSGEGLIIKWILKNLK
SIO_010081: A7X70_RS06415
subclass of: SO_0000673
so part of: A7X70_RS06415
location: 1282..1833
location: region:1282-1833:1
so has part: feature:1282-1833:1:exon

WP_075552794.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1282-1833:1:exon

A7X70_RS06420
type: Gene
subclass of: SO_0000704
RO_0002162: 1674146
locus tag: A7X70_RS06420
old locus tag: A7X70_06280
so part of: sequence
location: 1809..2549
location: region:1809-2549:1
so has part: feature:1809-2549:1:exon
subclass of: SO_0000010

position:1809:1
position: 1809
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2549:1
position: 2549
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1809-2549:1:exon

A7X70_RS06420
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1674146
locus tag: A7X70_RS06420
old locus tag: A7X70_06280
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014017761.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ParA family protein
translation: MDIKKSKIITIANIKGGVGKSTSAIIFSILLSQKYKVLLIDMDTQASTTSYFNKKIIENKFDLLEKNIYKVLKSNYLINDSIINVNNGLDLLPSYLGLHAFSEEILHYKTHRLKDSFKYLKFNYDYIIIDTNPHLDSTLSNALVISGHIIVPMTAEKWAIESLQLLEFFINKLKLNLKVFLFATKFKKNKTHKDLLEILQKKSRFLGIISEREDLNRRIAKNDGFDLDKDYIKEYLNILNNFNAKA
SIO_010081: A7X70_RS06420
subclass of: SO_0000673
so part of: A7X70_RS06420
location: 1809..2549
location: region:1809-2549:1
so has part: feature:1809-2549:1:exon

WP_075552795.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1809-2549:1:exon

A7X70_RS06425
type: Gene
subclass of: SO_0000704
RO_0002162: 1674146
locus tag: A7X70_RS06425
old locus tag: A7X70_06285
so part of: sequence
location: 2637..3194
location: region:2637-3194:1
so has part: feature:2637-3194:1:exon
subclass of: SO_0000010

position:2637:1
position: 2637
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3194:1
position: 3194
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2637-3194:1:exon

A7X70_RS06425
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1674146
locus tag: A7X70_RS06425
old locus tag: A7X70_06285
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014017762.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: chromosome replication/partitioning protein
translation: MSLGIEISDRIIVKEEIKKNLNNKDEIIEHYNMLKTHLKSNLQQGIYSKIENMKILKEIKDNKYYKLDGYKNFDAFIKDYKLAKTQTYCYLRIALAIENGVIEEPFLLENGIKETILFLRNSNSEKVKKSKQNPIKPLRFQLKKQESYDFYKKNAKFTAFILEELLENRKDFLNKLLKKYEGLKI
SIO_010081: A7X70_RS06425
subclass of: SO_0000673
so part of: A7X70_RS06425
location: 2637..3194
location: region:2637-3194:1
so has part: feature:2637-3194:1:exon

WP_075552796.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2637-3194:1:exon

A7X70_RS07235
type: Gene
subclass of: SO_0000704
RO_0002162: 1674146
gene: eppA
locus tag: A7X70_RS07235
old locus tag: A7X70_06290
pseudo: true
so part of: sequence
location: complement(3401..3641)
location: region:3401-3641:-1
so has part: feature:3401-3641:-1:exon
subclass of: SO_0000010

position:3401:-1
position: 3401
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3641:-1
position: 3641
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3401-3641:-1:exon

A7X70_RS07235
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1674146
gene: eppA
locus tag: A7X70_RS07235
old locus tag: A7X70_06290
inference: COORDINATES: protein motif:HMM:NF018920.2
note: frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: exported protein A EppA
SIO_010081: A7X70_RS07235
subclass of: SO_0000673
so part of: A7X70_RS07235
location: complement(3401..3641)
location: region:3401-3641:-1
so has part: feature:3401-3641:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:3401-3641:-1:exon

A7X70_RS06440
type: Gene
subclass of: SO_0000704
RO_0002162: 1674146
locus tag: A7X70_RS06440
old locus tag: A7X70_06295
so part of: sequence
location: 4963..5244
location: region:4963-5244:1
so has part: feature:4963-5244:1:exon
subclass of: SO_0000010

position:4963:1
position: 4963
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5244:1
position: 5244
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4963-5244:1:exon

A7X70_RS06440
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1674146
locus tag: A7X70_RS06440
old locus tag: A7X70_06295
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010258293.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MTKAFNDDIRCNSCNRLIRKYDETCVACGAKNNQNKKPYYSLISFLFCLFFGYLGFSYLGKTPKIGFTFLFISIVFLLIALLIFKTNKFTNKY
SIO_010081: A7X70_RS06440
subclass of: SO_0000673
so part of: A7X70_RS06440
location: 4963..5244
location: region:4963-5244:1
so has part: feature:4963-5244:1:exon

WP_075552798.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4963-5244:1:exon

A7X70_RS06445
type: Gene
subclass of: SO_0000704
RO_0002162: 1674146
locus tag: A7X70_RS06445
so part of: sequence
location: 5607..5753
location: region:5607-5753:1
so has part: feature:5607-5753:1:exon
subclass of: SO_0000010

position:5607:1
position: 5607
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5753:1
position: 5753
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5607-5753:1:exon

A7X70_RS06445
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1674146
locus tag: A7X70_RS06445
inference: COORDINATES: protein motif:HMM:NF013921.2
GO function: GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO process: GO:0006313 - transposition, DNA-mediated [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: transposase
translation: MRKKYSTYLDRHYWKPYFWSRSYCLISTGGTSIDIIKKYIQNQNKSIY
SIO_010081: A7X70_RS06445
subclass of: SO_0000673
so part of: A7X70_RS06445
location: 5607..5753
location: region:5607-5753:1
so has part: feature:5607-5753:1:exon

WP_235633230.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5607-5753:1:exon

A7X70_RS06450
type: Gene
subclass of: SO_0000704
RO_0002162: 1674146
locus tag: A7X70_RS06450
old locus tag: A7X70_06300
so part of: sequence
location: 5948..6709
location: region:5948-6709:1
so has part: feature:5948-6709:1:exon
subclass of: SO_0000010

position:5948:1
position: 5948
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6709:1
position: 6709
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5948-6709:1:exon

A7X70_RS06450
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1674146
locus tag: A7X70_RS06450
old locus tag: A7X70_06300
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010258297.1
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: MKINDFLDFKKEITEIVLEVVKDYHKAGKENKIKKSTKNKQENSKTPAKLYLNPKINQLIIKCVKTLKQIDPISGWFVHLLVISGCRGAELQKVKMQDITTFLSKTGKTLYNIKVNVAKKKFTTCTREFIITEKEFTAIQKVHETYFKKKNLNTSRTYFFQKTKHRFKDNRISIDHIAKKFKKLLRKWGFETRKSLHLCRNIFIFNLKSSGYNSFQIKELMKYSSTYEIDNIYGLSHASKIQAYECIKNSIAL
SIO_010081: A7X70_RS06450
subclass of: SO_0000673
so part of: A7X70_RS06450
location: 5948..6709
location: region:5948-6709:1
so has part: feature:5948-6709:1:exon

WP_075552799.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5948-6709:1:exon

A7X70_RS06455
type: Gene
subclass of: SO_0000704
RO_0002162: 1674146
locus tag: A7X70_RS06455
old locus tag: A7X70_06305
pseudo: true
so part of: sequence
location: complement(6799..8112)
location: region:6799-8112:-1
so has part: feature:6799-8112:-1:exon
subclass of: SO_0000010

position:6799:-1
position: 6799
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:8112:-1
position: 8112
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6799-8112:-1:exon

A7X70_RS06455
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1674146
locus tag: A7X70_RS06455
old locus tag: A7X70_06305
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014017770.1
note: internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: DUF244 domain-containing protein
SIO_010081: A7X70_RS06455
subclass of: SO_0000673
so part of: A7X70_RS06455
location: complement(6799..8112)
location: region:6799-8112:-1
so has part: feature:6799-8112:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:6799-8112:-1:exon