Borrelia puertoricensis strain SUM plasmid lp10, complete sequence.
type: Entry
definition: Borrelia puertoricensis strain SUM plasmid lp10, complete sequence.
sequence version: NZ_CP075390.1
sequence date: 2022-05-23
sequence: sequence
division: CON
label: NZ_CP075390.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN19000909
keyword: RefSeq
source: Borrelia puertoricensis
organism: Borrelia puertoricensis
taxonomy: Bacteria; Spirochaetes; Spirochaetales; Borreliaceae; Borrelia.
reference: 1
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP075390.1.\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 :: Canu v. 2\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 1138.0x\nSequencing Technology :: Oxford Nanopore MinION; Illumina NextSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/23/2022 17:07:05\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.1\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 1,976\nCDSs (total) :: 1,938\nGenes (coding) :: 1,830\nCDSs (with protein) :: 1,830\nGenes (RNA) :: 38\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 32\nncRNAs :: 3\nPseudo Genes (total) :: 108\nCDSs (without protein) :: 108\nPseudo Genes (ambiguous residues) :: 0 of 108\nPseudo Genes (frameshifted) :: 72 of 108\nPseudo Genes (incomplete) :: 37 of 108\nPseudo Genes (internal stop) :: 24 of 108\nPseudo Genes (multiple problems) :: 23 of 108\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 10202
topology: linear
so has quality: SO_0000987
location: 1..10202
location: region:1-10202:1
RO_0002162: 2756107

NZ_CP075390
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN19000909
type: BioSample
SIO_000068: biosample

1
title: Direct Submission
author: Kneubehl, A.R.
author: Lopez, J.
journal: Submitted (17-MAY-2021) Pediatrics-Tropical Medicine, Baylor College of Medicine, 1102 Bates Ave, Houston, TX 77030, USA

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

position:10202:1
position: 10202
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-10202:1:source
so part of: sequence
organism: Borrelia puertoricensis
mol type: genomic DNA
strain: SUM
isolation source: tick
host: Alectorobius puertoricensis
type material: type strain of Borrelia puertoricensis
plasmid: lp10
country: Panama
collection date: 2019-01-01

2756107
type: Taxonomy
SIO_000068: taxonomy

bpuSUM_RS07275
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07275
old locus tag: bpuSUM_001451
so part of: sequence
location: complement(34..549)
location: region:34-549:-1
so has part: feature:34-549:-1:exon
subclass of: SO_0000010

position:34:-1
position: 34
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:549:-1
position: 549
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:34-549:-1:exon

bpuSUM_RS07275
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07275
old locus tag: bpuSUM_001451
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012539779.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: chromosome replication/partitioning protein
translation: MKMDILNTIKSRVGDVTQIEDISDKEKARSRYRQLKEEIKARTLEEVVNKLELAKALYEIKKNKLYRFDGYDNFYEFCLDYKFSRTMIYRYIKIGAYLENENVSEQDFMQSSLNKIINDIRVKRSPSECKPVIVRFNLEDKEKQLILVKNKQKLEKFLLEYLLDNWESFMI
SIO_010081: bpuSUM_RS07275
subclass of: SO_0000673
so part of: bpuSUM_RS07275
location: complement(34..549)
location: region:34-549:-1
so has part: feature:34-549:-1:exon

WP_247067338.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:34-549:-1:exon

bpuSUM_RS07280
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07280
old locus tag: bpuSUM_001452
so part of: sequence
location: complement(594..1361)
location: region:594-1361:-1
so has part: feature:594-1361:-1:exon
subclass of: SO_0000010

position:594:-1
position: 594
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1361:-1
position: 1361
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:594-1361:-1:exon

bpuSUM_RS07280
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07280
old locus tag: bpuSUM_001452
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012539780.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ParA family protein
translation: MRDIITISSIKGGVGKSVTAIMLGFIFSKKYKTLLIDIDSQASVTSYFLPYFENKIDIREYNIYEVLKSKKSFMSIVHEITDNLHFAPSHIKLSQFSGENIIGQEYKLKTILTPYFDNYDYILIDTPPSVNKELINSLMIATKVVIPLPAELWAIESYDILKSKMQEIISAYQKQDFKSYYVIQTLYEENRKIKKEFFYSLQQLYQEYVPIKIHRSVAIQKMVTYRLEPQESERYYNEYLKVAEVIEGIENIKTT
SIO_010081: bpuSUM_RS07280
subclass of: SO_0000673
so part of: bpuSUM_RS07280
location: complement(594..1361)
location: region:594-1361:-1
so has part: feature:594-1361:-1:exon

WP_247067347.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:594-1361:-1:exon

bpuSUM_RS07285
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07285
old locus tag: bpuSUM_001453
so part of: sequence
location: complement(1358..1549)
location: region:1358-1549:-1
so has part: feature:1358-1549:-1:exon
subclass of: SO_0000010

position:1358:-1
position: 1358
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1549:-1
position: 1549
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1358-1549:-1:exon

bpuSUM_RS07285
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07285
old locus tag: bpuSUM_001453
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: MAKINNISYFTIKNKIKKLNISIKAKDIGVVNSLSEEFLIAEDNLDKLFYDKRFKCLDSRGMG
SIO_010081: bpuSUM_RS07285
subclass of: SO_0000673
so part of: bpuSUM_RS07285
location: complement(1358..1549)
location: region:1358-1549:-1
so has part: feature:1358-1549:-1:exon

WP_247067350.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1358-1549:-1:exon

bpuSUM_RS07290
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07290
old locus tag: bpuSUM_001454
so part of: sequence
location: 2070..2648
location: region:2070-2648:1
so has part: feature:2070-2648:1:exon
subclass of: SO_0000010

position:2070:1
position: 2070
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2648:1
position: 2648
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2070-2648:1:exon

bpuSUM_RS07290
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07290
old locus tag: bpuSUM_001454
inference: COORDINATES: protein motif:HMM:NF014468.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: plasmid maintenance protein
translation: MKNLNLFLYNNSKLKKNQVRLIKIISILKYLNKNKLGYNQQDILNLANFFLKKEGYAIIKMKTLQKDLGFLKKNNVIKTFIIRLGEYKGSKIKYMPKRNAYQILKQILNSTEELLERTFNIIYKLSKQEKIKNKTEQKNRTKNSSVYNNINNNINNKKKTIIENNKQPQTIEKILEKYMLHKGKQQKKTTKI
SIO_010081: bpuSUM_RS07290
subclass of: SO_0000673
so part of: bpuSUM_RS07290
location: 2070..2648
location: region:2070-2648:1
so has part: feature:2070-2648:1:exon

WP_247067352.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2070-2648:1:exon

bpuSUM_RS07295
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07295
old locus tag: bpuSUM_001455
so part of: sequence
location: complement(4090..4713)
location: region:4090-4713:-1
so has part: feature:4090-4713:-1:exon
subclass of: SO_0000010

position:4090:-1
position: 4090
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4713:-1
position: 4713
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4090-4713:-1:exon

bpuSUM_RS07295
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07295
old locus tag: bpuSUM_001455
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014023086.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MENTKQDNIQEKKLPMMLNYDNHMTEGNRETFFGDSQYEANYKAKVNGFIVDFFKIPRSLKSKYEINIKCLSSPDLPFGNIAMNCINTFKLIVDIINMQTGKTYGYDEFISKIETDKMLQYGAKLISALSRHFDEFNRTNYNEGYYEWEKGWIDKKWIDYEPSALEIKKMQELNKKINQELNCRNRRRKISSLQTGQMRLLQAIKKP
SIO_010081: bpuSUM_RS07295
subclass of: SO_0000673
so part of: bpuSUM_RS07295
location: complement(4090..4713)
location: region:4090-4713:-1
so has part: feature:4090-4713:-1:exon

WP_247067360.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4090-4713:-1:exon

bpuSUM_RS07300
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07300
old locus tag: bpuSUM_001456
so part of: sequence
location: 5490..6113
location: region:5490-6113:1
so has part: feature:5490-6113:1:exon
subclass of: SO_0000010

position:5490:1
position: 5490
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6113:1
position: 6113
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5490-6113:1:exon

bpuSUM_RS07300
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07300
old locus tag: bpuSUM_001456
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014023086.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MENTKQDNIQEKKLPMMLNYDNHMTEGNRETFFGDSQYEANYKAKVNGFIVDFFKIPRSLKSKYEINIKCLSSPDLPFGNIAMNCINTFKLIVDIINMQTGKTYGYDEFISKIETDKMLQYGAKLISALSRHFDEFNRTNYNEGYYEWEKGWIDKKWIDYEPSALEIKKMQELNKKINQELNCRNRRRKISSLQTGQMRLLQAIKKP
SIO_010081: bpuSUM_RS07300
subclass of: SO_0000673
so part of: bpuSUM_RS07300
location: 5490..6113
location: region:5490-6113:1
so has part: feature:5490-6113:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:5490-6113:1:exon

bpuSUM_RS07305
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07305
old locus tag: bpuSUM_001457
so part of: sequence
location: complement(7552..8130)
location: region:7552-8130:-1
so has part: feature:7552-8130:-1:exon
subclass of: SO_0000010

position:7552:-1
position: 7552
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:8130:-1
position: 8130
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7552-8130:-1:exon

bpuSUM_RS07305
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07305
old locus tag: bpuSUM_001457
inference: COORDINATES: protein motif:HMM:NF014468.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: plasmid maintenance protein
translation: MKNLNLFLYNNSKLKKNQVRLIKIISILKYLNKNKLGYNQQDILNLANFFLKKEGYAIIKMKTLQKDLGFLKKNNVIKTFIIRLGEYKGSKIKYMPKRNAYQILKQILNSTEELLERTFNIIYKLSKQEKIKNKTEQKNRTKNSSVYNNINNNINNKKKTIIENNKQPQTIEKILEKYMLHKGKQQKKTTKI
SIO_010081: bpuSUM_RS07305
subclass of: SO_0000673
so part of: bpuSUM_RS07305
location: complement(7552..8130)
location: region:7552-8130:-1
so has part: feature:7552-8130:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:7552-8130:-1:exon

bpuSUM_RS07310
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07310
old locus tag: bpuSUM_001458
so part of: sequence
location: 8348..8578
location: region:8348-8578:1
so has part: feature:8348-8578:1:exon
subclass of: SO_0000010

position:8348:1
position: 8348
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:8578:1
position: 8578
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:8348-8578:1:exon

bpuSUM_RS07310
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07310
old locus tag: bpuSUM_001458
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014683070.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MRITLKFLNSLKNLKEFSKEMGYSDSSYLSRYIKKNKIEGVISSKDLFFKKRELLLSEEAQNLIKSKLKKELQKGS
SIO_010081: bpuSUM_RS07310
subclass of: SO_0000673
so part of: bpuSUM_RS07310
location: 8348..8578
location: region:8348-8578:1
so has part: feature:8348-8578:1:exon

WP_247067362.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:8348-8578:1:exon

bpuSUM_RS07315
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07315
old locus tag: bpuSUM_001459
so part of: sequence
location: 8581..8844
location: region:8581-8844:1
so has part: feature:8581-8844:1:exon
subclass of: SO_0000010

position:8581:1
position: 8581
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:8844:1
position: 8844
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:8581-8844:1:exon

bpuSUM_RS07315
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07315
old locus tag: bpuSUM_001459
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014683071.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MAETTNLKNFFIEYEGKKYYTPLFLAKINNISYFTIKNKIKKLNISIKAKDIGVVNSLSEEFLIAEDNLDKLFYDKRFKCLDSRGMG
SIO_010081: bpuSUM_RS07315
subclass of: SO_0000673
so part of: bpuSUM_RS07315
location: 8581..8844
location: region:8581-8844:1
so has part: feature:8581-8844:1:exon

WP_247067371.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:8581-8844:1:exon

bpuSUM_RS07320
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07320
old locus tag: bpuSUM_001460
so part of: sequence
location: 8841..9608
location: region:8841-9608:1
so has part: feature:8841-9608:1:exon
subclass of: SO_0000010

position:8841:1
position: 8841
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:9608:1
position: 9608
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:8841-9608:1:exon

bpuSUM_RS07320
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07320
old locus tag: bpuSUM_001460
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012539780.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ParA family protein
translation: MRDIITISSIKGGVGKSVTAIMLGFIFSKKYKTLLIDIDSQASVTSYFLPYFENKIDIREYNIYEVLKSKKSFMSIVHEITDNLHFAPSHIKLSQFSGENIIGQEYKLKTILTPYFDNYDYILIDTPPSVNKELINSLMIATKVVIPLPAELWAIESYDILKSKMQEIISAYQKQDFKSYYVIQTLYEENRKIKKEFFYSLQQLYQEYVPIKIHRSVAIQKMVTYRLEPQESERYYNEYLKVAEVIEGIENIKTT
SIO_010081: bpuSUM_RS07320
subclass of: SO_0000673
so part of: bpuSUM_RS07320
location: 8841..9608
location: region:8841-9608:1
so has part: feature:8841-9608:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:8841-9608:1:exon

bpuSUM_RS07325
type: Gene
subclass of: SO_0000704
RO_0002162: 2756107
locus tag: bpuSUM_RS07325
old locus tag: bpuSUM_001461
so part of: sequence
location: 9654..10169
location: region:9654-10169:1
so has part: feature:9654-10169:1:exon
subclass of: SO_0000010

position:9654:1
position: 9654
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:10169:1
position: 10169
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:9654-10169:1:exon

bpuSUM_RS07325
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2756107
locus tag: bpuSUM_RS07325
old locus tag: bpuSUM_001461
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012539779.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: chromosome replication/partitioning protein
translation: MKMDILNTIKSRVGDVTQIEDISDKEKARSRYRQLKEEIKARTLEEVVNKLELAKALYEIKKNKLYRFDGYDNFYEFCLDYKFSRTMIYRYIKIGAYLENENVSEQDFMQSSLNKIINDIRVKRSPSECKPVIVRFNLEDKEKQLILVKNKQKLEKFLLEYLLDNWESFMI
SIO_010081: bpuSUM_RS07325
subclass of: SO_0000673
so part of: bpuSUM_RS07325
location: 9654..10169
location: region:9654-10169:1
so has part: feature:9654-10169:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:9654-10169:1:exon