Prevotella veroralis strain F0319 plasmid unnamed, complete sequence.
type: Entry
definition: Prevotella veroralis strain F0319 plasmid unnamed, complete sequence.
sequence version: NZ_CP072332.1
sequence date: 2023-05-18
sequence: sequence
division: CON
label: NZ_CP072332.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN18352189
keyword: RefSeq
source: Prevotella veroralis
organism: Prevotella veroralis
taxonomy: Bacteria; Bacteroidota; Bacteroidia; Bacteroidales; Prevotellaceae; Prevotella.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP072332.1.\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 Date :: 28-SEP-2020\nAssembly Method :: Pacbio MA v. 9.0.0.92188\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 377x\nSequencing Technology :: PacBio Sequel\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/18/2023 03:45:16\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) :: 2,476\nCDSs (total) :: 2,410\nGenes (coding) :: 2,339\nCDSs (with protein) :: 2,339\nGenes (RNA) :: 66\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 51\nncRNAs :: 3\nPseudo Genes (total) :: 71\nCDSs (without protein) :: 71\nPseudo Genes (ambiguous residues) :: 0 of 71\nPseudo Genes (frameshifted) :: 35 of 71\nPseudo Genes (incomplete) :: 40 of 71\nPseudo Genes (internal stop) :: 13 of 71\nPseudo Genes (multiple problems) :: 17 of 71\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 4130
topology: circular
so has quality: SO_0000988
location: 1..4130
location: region:1-4130:1
RO_0002162: 28137

NZ_CP072332
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN18352189
type: BioSample
SIO_000068: biosample

1
title: Human Oral Microbial Genomes
author: Johnston, C.D.
author: Chen, T.
author: Dewhirst, F.E.
journal: Unpublished

2
title: Direct Submission
author: Johnston, C.D.
author: Chen, T.
author: Dewhirst, F.E.
journal: Submitted (21-MAR-2021) Microbiology, The Forsyth Institute, 245 First Street, Cambridge, MA 02142, USA

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

position:4130:1
position: 4130
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-4130:1:source
so part of: sequence
organism: Prevotella veroralis
mol type: genomic DNA
strain: F0319
isolation source: human oral cavity
host: Homo sapiens
plasmid: unnamed
country: USA: Blacksberg, Virginia
lat lon: 37.23 N 80.42 W
altitude: 634 m
collection date: 1985-09
collected by: Moores, Virginia Polytechnic Institute

28137
type: Taxonomy
SIO_000068: taxonomy

J5A55_RS12230
type: Gene
subclass of: SO_0000704
RO_0002162: 28137
locus tag: J5A55_RS12230
old locus tag: J5A55_12230
so part of: sequence
location: complement(30..197)
location: region:30-197:-1
so has part: feature:30-197:-1:exon
subclass of: SO_0000010

position:30:-1
position: 30
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:197:-1
position: 197
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:30-197:-1:exon

J5A55_RS12230
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 28137
locus tag: J5A55_RS12230
old locus tag: J5A55_12230
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: MVRYAPDEWREERTERKGKEEERRLTKRTSEESTAERNDPYKKKMHLVQEVLHVV
SIO_010081: J5A55_RS12230
subclass of: SO_0000673
so part of: J5A55_RS12230
location: complement(30..197)
location: region:30-197:-1
so has part: feature:30-197:-1:exon

WP_199879844.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:30-197:-1:exon

J5A55_RS12235
type: Gene
subclass of: SO_0000704
RO_0002162: 28137
locus tag: J5A55_RS12235
old locus tag: J5A55_12235
so part of: sequence
location: 470..1372
location: region:470-1372:1
so has part: feature:470-1372:1:exon
subclass of: SO_0000010

position:470:1
position: 470
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1372:1
position: 1372
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:470-1372:1:exon

J5A55_RS12235
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 28137
locus tag: J5A55_RS12235
old locus tag: J5A55_12235
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: MAQTSVNFQSVKAGSEQHNKREKELDYVHKELSHNNEYWESCTQEQRMKELKKLVKEKSGRKMQKNASPIWEAVVVIDEHTTMAKLHTLAEELHQKFGMNCFQIAIHKDEGYKMSKDQVKLNLHAHMVFDWIDHETGRAKHYNRTHMAQIQTLVANVLDMERGRSSDKKHKTPQQFKAEKEAEEAMKKKQEAEEQARKAEAVAVEKRQEQKELEDKNTTLRKEWYTMWKQNLELSGQRNNLTVTVWDQKEELKKAKISLSNVQSELCTANSTLEDQKRLISQKKRPIKANRGGYYVGEVL
SIO_010081: J5A55_RS12235
subclass of: SO_0000673
so part of: J5A55_RS12235
location: 470..1372
location: region:470-1372:1
so has part: feature:470-1372:1:exon

WP_249118615.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:470-1372:1:exon

J5A55_RS12450
type: Gene
subclass of: SO_0000704
RO_0002162: 28137
locus tag: J5A55_RS12450
so part of: sequence
location: 1356..1781
location: region:1356-1781:1
so has part: feature:1356-1781:1:exon
subclass of: SO_0000010

position:1356:1
position: 1356
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1781:1
position: 1781
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1356-1781:1:exon

J5A55_RS12450
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 28137
locus tag: J5A55_RS12450
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: MAKSFDNRISRAFNGADVENSLWGATPLRAAAEECEKIKNEIENRYRRIESIIGKAVDCISDCITDMKRRAFSSSDVLTIDTALGKSRREERADYLLEAAEEKAEVKHGNYAGHAIWERDLKAIARGEQVRTIDRGQGLRY
SIO_010081: J5A55_RS12450
subclass of: SO_0000673
so part of: J5A55_RS12450
location: 1356..1781
location: region:1356-1781:1
so has part: feature:1356-1781:1:exon

WP_249118616.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1356-1781:1:exon

J5A55_RS12240
type: Gene
subclass of: SO_0000704
RO_0002162: 28137
locus tag: J5A55_RS12240
old locus tag: J5A55_12240
so part of: sequence
location: 1858..2103
location: region:1858-2103:1
so has part: feature:1858-2103:1:exon
subclass of: SO_0000010

position:1858:1
position: 1858
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2103:1
position: 2103
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1858-2103:1:exon

J5A55_RS12240
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 28137
locus tag: J5A55_RS12240
old locus tag: J5A55_12240
inference: COORDINATES: similar to AA sequence:RefSeq:WP_009013355.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: Arc family DNA-binding protein
translation: MNTTAIRKPASFRLPQDLLEALKERAKASNRSLNNYVESALLQLVYHEPNETTIAAMNEALSGKELETLDMANFKDFVKSL
SIO_010081: J5A55_RS12240
subclass of: SO_0000673
so part of: J5A55_RS12240
location: 1858..2103
location: region:1858-2103:1
so has part: feature:1858-2103:1:exon

WP_039851649.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1858-2103:1:exon

J5A55_RS12245
type: Gene
subclass of: SO_0000704
RO_0002162: 28137
locus tag: J5A55_RS12245
old locus tag: J5A55_12245
so part of: sequence
location: 2108..2389
location: region:2108-2389:1
so has part: feature:2108-2389:1:exon
subclass of: SO_0000010

position:2108:1
position: 2108
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2389:1
position: 2389
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2108-2389:1:exon

J5A55_RS12245
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 28137
locus tag: J5A55_RS12245
old locus tag: J5A55_12245
inference: COORDINATES: similar to AA sequence:RefSeq:WP_004384764.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: type II toxin-antitoxin system YafQ family toxin
translation: MAKFEIKPTGQFKKDLKRYKYDQGKLDDLQKVLDCLEETGVVPKDYKPHPLFGNYKGFLECHVQEDFLLIWIDKEKPLIKLVRIGSHSELFKK
SIO_010081: J5A55_RS12245
subclass of: SO_0000673
so part of: J5A55_RS12245
location: 2108..2389
location: region:2108-2389:1
so has part: feature:2108-2389:1:exon

WP_004384764.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2108-2389:1:exon

J5A55_RS12250
type: Gene
subclass of: SO_0000704
RO_0002162: 28137
locus tag: J5A55_RS12250
old locus tag: J5A55_12250
so part of: sequence
location: 2797..3774
location: region:2797-3774:1
so has part: feature:2797-3774:1:exon
subclass of: SO_0000010

position:2797:1
position: 2797
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3774:1
position: 3774
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2797-3774:1:exon

J5A55_RS12250
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 28137
locus tag: J5A55_RS12250
old locus tag: J5A55_12250
inference: COORDINATES: similar to AA sequence:RefSeq:WP_007572098.1
GO function: GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO process: GO:0006270 - DNA replication initiation [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication initiation protein
translation: MARTIKGNELAIQSYIFTTAKYDFSAYEKRIMYRLVELAQDEIKGIMIRDNMHKIEPTLFGREITMPVADILRDEKDQNYTIAKKAFKSLAQKGVEYEDEKIWQYTSIISSPKINKIKGSVVFQVADDIWRCLLDFTKGYRKYELITAMGFKSVYSMRMYELMSGQKRPLEFTFEDLKQRFKLKDKYSKVNDFKRWVLDIAKKELDESSPYSFNYIEVKEGRRVVSFKFFPTFKPDNKDTELYATEMRSKVSASAQISREAYDYFRYSFEFKTAEISKNKKTIIEGEKKISDFIGFLSSLVGPSRTATNRIGYVINAIKKKTAES
SIO_010081: J5A55_RS12250
subclass of: SO_0000673
so part of: J5A55_RS12250
location: 2797..3774
location: region:2797-3774:1
so has part: feature:2797-3774:1:exon

WP_004384762.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2797-3774:1:exon