Streptococcus dysgalactiae strain FDAARGOS_1157 plasmid unnamed1, complete sequence.
type: Entry
definition: Streptococcus dysgalactiae strain FDAARGOS_1157 plasmid unnamed1, complete sequence.
sequence version: NZ_CP068058.1
sequence date: 2023-04-09
sequence: sequence
division: CON
label: NZ_CP068058.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN16357326
keyword: RefSeq
source: Streptococcus dysgalactiae
organism: Streptococcus dysgalactiae
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Streptococcaceae; Streptococcus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP068058.1.\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 :: SMRT v. 8.0.0, HGAP v. 4, SPAdes v. 3.11.1\nGenome Coverage :: 2001.91x\nSequencing Technology :: Pacbio; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/09/2023 13:12:14\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) :: 2,169\nCDSs (total) :: 2,080\nGenes (coding) :: 1,974\nCDSs (with protein) :: 1,974\nGenes (RNA) :: 89\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 67\nncRNAs :: 4\nPseudo Genes (total) :: 106\nCDSs (without protein) :: 106\nPseudo Genes (ambiguous residues) :: 0 of 106\nPseudo Genes (frameshifted) :: 52 of 106\nPseudo Genes (incomplete) :: 48 of 106\nPseudo Genes (internal stop) :: 48 of 106\nPseudo Genes (multiple problems) :: 32 of 106\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 6534
topology: circular
so has quality: SO_0000988
location: 1..6534
location: region:1-6534:1
RO_0002162: 1334

NZ_CP068058
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN16357326
type: BioSample
SIO_000068: biosample

1
title: FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS): Supporting development and validation of Infectious Disease Dx tests
author: Sproer, C.
author: Gronow, S.
author: Severitt, S.
author: Schroder, I.
author: Tallon, L.
author: Sadzewicz, L.
author: Zhao, X.
author: Boylan, J.
author: Ott, S.
author: Bowen, H.
author: Vavikolanu, K.
author: Mehta, A.
author: Aluvathingal, J.
author: Nadendla, S.
author: Lowell, S.
author: Myers, T.
author: Yan, Y.
author: Sichtig, H.
journal: Unpublished

2
title: Direct Submission
author: Sproer, C.
author: Gronow, S.
author: Severitt, S.
author: Schroder, I.
author: Tallon, L.
author: Sadzewicz, L.
author: Zhao, X.
author: Boylan, J.
author: Ott, S.
author: Bowen, H.
author: Vavikolanu, K.
author: Mehta, A.
author: Aluvathingal, J.
author: Nadendla, S.
author: Lowell, S.
author: Myers, T.
author: Yan, Y.
author: Sichtig, H.
journal: Submitted (11-JAN-2021) Institute for Genome Sciences, University of Maryland School of Medicine, BioPark II, 801 W. Baltimore St., Suite 619, Baltimore, MD 21201, USA

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

position:6534:1
position: 6534
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-6534:1:source
so part of: sequence
organism: Streptococcus dysgalactiae
mol type: genomic DNA
strain: FDAARGOS_1157
culture collection: DSM:20662
type material: type strain of Streptococcus dysgalactiae
plasmid: unnamed1
country: Germany: Braunschweig
collected by: DSMZ

1334
type: Taxonomy
SIO_000068: taxonomy

I6J14_RS10690
type: Gene
subclass of: SO_0000704
RO_0002162: 1334
locus tag: I6J14_RS10690
old locus tag: I6J14_10690
so part of: sequence
location: 72..686
location: region:72-686:1
so has part: feature:72-686:1:exon
subclass of: SO_0000010

79941921
type: Gene
SIO_000068: ncbigene

position:72:1
position: 72
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:686:1
position: 686
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:72-686:1:exon

I6J14_RS10690
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1334
locus tag: I6J14_RS10690
old locus tag: I6J14_10690
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012514790.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MKKIKRFIIALALSLFTIANTAPAIVYANETNQIINEQQQVQQAIDEIDQKLSRPISVSENDLNARIQEAKKRYPGLTEERMKELAYQTLTPYSFRASVWDGQGVTVDEFAWVVENLIAASISGGVGGIGNLVKQKGLAAAKATLSRVAKAAAMRVGVYSGWIAGALERVFDYINIFANVGHAVAQWVDANDFHPNNGRINAWA
SIO_010081: I6J14_RS10690
subclass of: SO_0000673
so part of: I6J14_RS10690
location: 72..686
location: region:72-686:1
so has part: feature:72-686:1:exon

WP_000721502.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:72-686:1:exon

I6J14_RS10695
type: Gene
subclass of: SO_0000704
RO_0002162: 1334
locus tag: I6J14_RS10695
old locus tag: I6J14_10695
so part of: sequence
location: complement(912..1547)
location: region:912-1547:-1
so has part: feature:912-1547:-1:exon
subclass of: SO_0000010

79941922
type: Gene
SIO_000068: ncbigene

position:912:-1
position: 912
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1547:-1
position: 1547
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:912-1547:-1:exon

I6J14_RS10695
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1334
locus tag: I6J14_RS10695
old locus tag: I6J14_10695
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010889904.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication protein
translation: MAKEKARYFTFLLYPESIPIDWELKLETLGVPIAVSPLHDKDKSNVEGQKYKKPHYHVIYIAKNPVTADSVRWKIKKILGEQSVAMVQVALNVENTYLYLTHESKDAIAKKKHVYDKVDIKLINNFDIDRYVTLDVEKKAELFNVVVSLIRAYTLQNIFDLYDFIDENGETYGLTINLVNEVISGKTGFMKLLFDGAYQRSKRGIKSRAEE
SIO_010081: I6J14_RS10695
subclass of: SO_0000673
so part of: I6J14_RS10695
location: complement(912..1547)
location: region:912-1547:-1
so has part: feature:912-1547:-1:exon

WP_115245478.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:912-1547:-1:exon

I6J14_RS10700
type: Gene
subclass of: SO_0000704
RO_0002162: 1334
locus tag: I6J14_RS10700
old locus tag: I6J14_10700
so part of: sequence
location: complement(1606..1743)
location: region:1606-1743:-1
so has part: feature:1606-1743:-1:exon
subclass of: SO_0000010

79941923
type: Gene
SIO_000068: ncbigene

position:1606:-1
position: 1606
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1743:-1
position: 1743
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1606-1743:-1:exon

I6J14_RS10700
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1334
locus tag: I6J14_RS10700
old locus tag: I6J14_10700
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010889903.1
GO process: GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: plasmid copy number transcriptional regulator CopA
translation: MKKRLTITLSESVFGNLEKMAKEMGLSKSAMISVALENYKKGQEK
SIO_010081: I6J14_RS10700
subclass of: SO_0000673
so part of: I6J14_RS10700
location: complement(1606..1743)
location: region:1606-1743:-1
so has part: feature:1606-1743:-1:exon

WP_000746877.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1606-1743:-1:exon

I6J14_RS10705
type: Gene
subclass of: SO_0000704
RO_0002162: 1334
locus tag: I6J14_RS10705
old locus tag: I6J14_10705
so part of: sequence
location: complement(2197..2514)
location: region:2197-2514:-1
so has part: feature:2197-2514:-1:exon
subclass of: SO_0000010

79941924
type: Gene
SIO_000068: ncbigene

position:2197:-1
position: 2197
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2514:-1
position: 2514
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2197-2514:-1:exon

I6J14_RS10705
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1334
locus tag: I6J14_RS10705
old locus tag: I6J14_10705
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000120771.1
GO function: GO:0008657 - DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) inhibitor activity [Evidence IEA]; GO:0042803 - protein homodimerization activity [Evidence IEA]
GO process: GO:0030541 - plasmid partitioning [Evidence IEA]; GO:0051290 - protein heterotetramerization [Evidence IEA]
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: MSYKVITSSETVRDIEEAVFYKEGLGVYPENVVKFKKAVVSTIRKLVDSPKIGANLSARIDEETEIKYSVIDDYILFYELEVDTVKVLRLLPAKTNWMNTILKYL
SIO_010081: I6J14_RS10705
subclass of: SO_0000673
so part of: I6J14_RS10705
location: complement(2197..2514)
location: region:2197-2514:-1
so has part: feature:2197-2514:-1:exon

WP_000120771.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2197-2514:-1:exon

I6J14_RS10710
type: Gene
subclass of: SO_0000704
RO_0002162: 1334
locus tag: I6J14_RS10710
old locus tag: I6J14_10710
so part of: sequence
location: complement(2514..2762)
location: region:2514-2762:-1
so has part: feature:2514-2762:-1:exon
subclass of: SO_0000010

79941925
type: Gene
SIO_000068: ncbigene

position:2762:-1
position: 2762
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2514-2762:-1:exon

I6J14_RS10710
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1334
locus tag: I6J14_RS10710
old locus tag: I6J14_10710
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000428054.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: type II toxin-antitoxin system Phd/YefM family antitoxin
translation: MENIVPVSDMRYYNQTLSDVSVGSQVILTRNGKAEYAVVDIEEWRRTKATLRLFEELQKGYRSLANEKAYTPDELAERLGVD
SIO_010081: I6J14_RS10710
subclass of: SO_0000673
so part of: I6J14_RS10710
location: complement(2514..2762)
location: region:2514-2762:-1
so has part: feature:2514-2762:-1:exon

WP_000428054.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2514-2762:-1:exon

I6J14_RS10715
type: Gene
subclass of: SO_0000704
RO_0002162: 1334
locus tag: I6J14_RS10715
old locus tag: I6J14_10715
so part of: sequence
location: complement(3385..3891)
location: region:3385-3891:-1
so has part: feature:3385-3891:-1:exon
subclass of: SO_0000010

79941926
type: Gene
SIO_000068: ncbigene

position:3385:-1
position: 3385
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3891:-1
position: 3891
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3385-3891:-1:exon

I6J14_RS10715
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1334
locus tag: I6J14_RS10715
old locus tag: I6J14_10715
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000791562.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MKNKLFKIITTSLTIVTLGGVFVPSAIYANEVLQPETVVSLPSDINRDQLTTEIISDIEKEGLPEVLNERPKRQKRGAAGLMATLIAKYGVRYVKTQLPKIIYKHIGKYVGNKIGEAAFVRIFGNIVDWGTGAAIEQALAQALQAAGIDAGTANTVATVTVTVASWLI
SIO_010081: I6J14_RS10715
subclass of: SO_0000673
so part of: I6J14_RS10715
location: complement(3385..3891)
location: region:3385-3891:-1
so has part: feature:3385-3891:-1:exon

WP_069986292.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3385-3891:-1:exon

I6J14_RS10720
type: Gene
subclass of: SO_0000704
RO_0002162: 1334
locus tag: I6J14_RS10720
old locus tag: I6J14_10720
so part of: sequence
location: complement(4191..4496)
location: region:4191-4496:-1
so has part: feature:4191-4496:-1:exon
subclass of: SO_0000010

79941927
type: Gene
SIO_000068: ncbigene

position:4191:-1
position: 4191
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4496:-1
position: 4496
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4191-4496:-1:exon

I6J14_RS10720
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1334
locus tag: I6J14_RS10720
old locus tag: I6J14_10720
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017649590.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF1778 domain-containing protein
translation: MAQINIRVTDEQKALINKLAKENEKSISAYIIDKICIESVYQNDSKRIDETKKDDEGLILLLMKQLEQKDMQIEQLHKIIYNKDTKLLEYDSKKSWWQFWK
SIO_010081: I6J14_RS10720
subclass of: SO_0000673
so part of: I6J14_RS10720
location: complement(4191..4496)
location: region:4191-4496:-1
so has part: feature:4191-4496:-1:exon

WP_000057278.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4191-4496:-1:exon

I6J14_RS10725
type: Gene
subclass of: SO_0000704
RO_0002162: 1334
locus tag: I6J14_RS10725
old locus tag: I6J14_10725
so part of: sequence
location: complement(4559..5500)
location: region:4559-5500:-1
so has part: feature:4559-5500:-1:exon
subclass of: SO_0000010

79941928
type: Gene
SIO_000068: ncbigene

position:4559:-1
position: 4559
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5500:-1
position: 5500
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4559-5500:-1:exon

I6J14_RS10725
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1334
locus tag: I6J14_RS10725
old locus tag: I6J14_10725
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000660642.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: protein rep
translation: MVNELNQEEVLRDKNSKGKDRDWRGRKIMSLKLADVFENLGYKKSMIERVQSCGEVLNFIRHSDGSLKLYQAYFCKNKLCPMCNWRRSMKYSYQTSRIVDEAIKRESKGRFLFLTLTVKNVPGSDLNKTLSSLTQSFDRLFRRAKVKKNLIRYLRSVEVTHNELTNEYHPHIHVLLMLKISYFKGGNYITQKEWGEMWSQSLKVDYVPMIDIRAVKEKGKGLKGAILETAKYPTKPIKLEMENKQVVDDLYNGLYRKRQLGYGGLFKIIKKELALDDAENGDLIHTSEDNDSLSEGTKIVAIWNAIKQNYYLK
SIO_010081: I6J14_RS10725
subclass of: SO_0000673
so part of: I6J14_RS10725
location: complement(4559..5500)
location: region:4559-5500:-1
so has part: feature:4559-5500:-1:exon

WP_001893498.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4559-5500:-1:exon

I6J14_RS10730
type: Gene
subclass of: SO_0000704
RO_0002162: 1334
locus tag: I6J14_RS10730
old locus tag: I6J14_10730
pseudo: true
so part of: sequence
location: complement(5813..>6010)
location: region:5813-6010:-1
so has part: feature:5813-6010:-1:exon
subclass of: SO_0000010

79941929
type: Gene
SIO_000068: ncbigene

position:5813:-1
position: 5813
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6010:-1
position: 6010
reference: sequence
type: ReverseStrandPosition
type: FuzzyPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5813-6010:-1:exon

I6J14_RS10730
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1334
locus tag: I6J14_RS10730
old locus tag: I6J14_10730
inference: COORDINATES: protein motif:HMM:NF016876.2
note: incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: type II toxin-antitoxin system RelE/ParE family toxin
SIO_010081: I6J14_RS10730
subclass of: SO_0000673
so part of: I6J14_RS10730
location: complement(5813..>6010)
location: region:5813-6010:-1
so has part: feature:5813-6010:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:5813-6010:-1:exon