Ketogulonicigenium robustum strain SPU_B003 plasmid unnamed3, complete sequence.
type: Entry
definition: Ketogulonicigenium robustum strain SPU_B003 plasmid unnamed3, complete sequence.
sequence version: NZ_CP019940.1
sequence date: 2023-02-06
sequence: sequence
division: CON
label: NZ_CP019940.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN06191729
keyword: RefSeq
source: Ketogulonicigenium robustum
organism: Ketogulonicigenium robustum
taxonomy: Bacteria; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Roseobacteraceae; Ketogulonicigenium.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP019940.1.\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 :: GS De Novo Assmbler v. 2.5.3\nGenome Coverage :: 20.49\nSequencing Technology :: 454\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 05:22:22\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) :: 2,696\nCDSs (total) :: 2,613\nGenes (coding) :: 2,581\nCDSs (with protein) :: 2,581\nGenes (RNA) :: 83\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 62\nncRNAs :: 3\nPseudo Genes (total) :: 32\nCDSs (without protein) :: 32\nPseudo Genes (ambiguous residues) :: 0 of 32\nPseudo Genes (frameshifted) :: 19 of 32\nPseudo Genes (incomplete) :: 17 of 32\nPseudo Genes (internal stop) :: 8 of 32\nPseudo Genes (multiple problems) :: 12 of 32\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 7028
topology: circular
so has quality: SO_0000988
location: 1..7028
location: region:1-7028:1
RO_0002162: 92947

NZ_CP019940
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN06191729
type: BioSample
SIO_000068: biosample

1
title: Ketogulonicigenium robustum SPU B003 Genome sequencing and assembly
author: Li, Y.
author: Liu, L.
author: Wang, C.
author: Zhang, M.
author: Zhang, T.
author: Zhang, Y.
journal: Unpublished

2
title: Direct Submission
author: Li, Y.
author: Liu, L.
author: Wang, C.
author: Zhang, M.
author: Zhang, T.
author: Zhang, Y.
journal: Submitted (22-FEB-2017) Shenyang Pharmaceutical University, School of Life Science and Biological Pharmacy, Wenhua Road, 103th, Shenyang, Liaoning 110016, China

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

position:7028:1
position: 7028
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-7028:1:source
so part of: sequence
organism: Ketogulonicigenium robustum
mol type: genomic DNA
strain: SPU_B003
isolation source: soil
plasmid: unnamed3
country: China: Yunnan
collection date: 2015-04-03

92947
type: Taxonomy
SIO_000068: taxonomy

BVG79_RS13295
type: Gene
subclass of: SO_0000704
RO_0002162: 92947
locus tag: BVG79_RS13295
old locus tag: BVG79_p3000001
so part of: sequence
location: join(6912..7028,1..456)
location: region:1-7028:1
so has part: feature:6912-7028:1:exon
so has part: feature:1-456:1:exon
subclass of: SO_0000010

urn:…
SIO_000300: 1
SIO_000628: feature:6912-7028:1:exon

position:6912:1
position: 6912
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:1-456:1:exon

position:456:1
position: 456
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

BVG79_RS13295
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 92947
locus tag: BVG79_RS13295
old locus tag: BVG79_p3000001
inference: COORDINATES: similar to AA sequence:RefSeq:WP_004213409.1
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: MAKPPPIPAKRPLGTWVQTDREAHEAWAILAKKPAASAVMHILCANLGEHNAVVISQDTIAKLCGLSTRSVRRAIVDLAEGRWIEVRQLGATSQTNAYVVNDRVAWQGSRDGLRYSLFSAAIVVSEEEQPDRAELDQQAPLRHLPRISEGQIPTGPGLPPPSQPFLKDMEPDLPTIDRATSPNFDQQEQG
SIO_010081: BVG79_RS13295
subclass of: SO_0000673
so part of: BVG79_RS13295
location: join(6912..7028,1..456)
location: region:1-7028:1
so has part: feature:6912-7028:1:exon
so has part: feature:1-456:1:exon

WP_085787610.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6912-7028:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:1-456:1:exon

BVG79_RS13600
type: Gene
subclass of: SO_0000704
RO_0002162: 92947
locus tag: BVG79_RS13600
so part of: sequence
location: 453..851
location: region:453-851:1
so has part: feature:453-851:1:exon
subclass of: SO_0000010

position:453:1
position: 453
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:851:1
position: 851
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:453-851:1:exon

BVG79_RS13600
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 92947
locus tag: BVG79_RS13600
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
GO function: GO:0003677 - DNA binding [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: helix-turn-helix domain-containing protein
translation: MKKVDKLSIREAVKHFDVSRPTLQKALKSGKISGVQDGQGTWTIDPSEMARVYQPRQDEVVKDGGQEHENLSAKNTPLHGQVEVLKERLADAEKRVAIAEALAEERGKHIEDLRRMLPAPEAGQPRRRWWPW
SIO_010081: BVG79_RS13600
subclass of: SO_0000673
so part of: BVG79_RS13600
location: 453..851
location: region:453-851:1
so has part: feature:453-851:1:exon

WP_157115761.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:453-851:1:exon

BVG79_RS13300
type: Gene
subclass of: SO_0000704
RO_0002162: 92947
locus tag: BVG79_RS13300
old locus tag: BVG79_p3000003
so part of: sequence
location: complement(1321..2538)
location: region:1321-2538:-1
so has part: feature:1321-2538:-1:exon
subclass of: SO_0000010

position:1321:-1
position: 1321
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2538:-1
position: 2538
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1321-2538:-1:exon

BVG79_RS13300
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 92947
locus tag: BVG79_RS13300
old locus tag: BVG79_p3000003
inference: COORDINATES: similar to AA sequence:RefSeq:WP_005848907.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: multidrug effflux MFS transporter
translation: MLDRPLIPARAGALIAVLALLSIFPPLATDMYLSAIGILAEDLNTSHAATELSLSLFFLGLCLGQLIVGPLTDGYGRKRPLLIGVFIFTVTSIALPLVDNIVVFNALRFLQAIGACVGMVVSRAIVADLYSGQKAAKVMTLLVMLMTIGPVIAPTLGSLLLEAFGWRSIFVTMVLVGLPALILSKLVVPETLSPERRVAQPFRSATRNGLRLVRQPAYLAPVLVAGLVQGGMFAFITGSSGVFQGFFGMSALNYGLIFALIAAALFVFAQINSRLLDRFTPRDMLNRGLPFYGLAALAAVLASATGSVWMFIIPLWIAIGMVGLLSANATSLAMAAATEAAGTGSALLGAVQFGMAFTISTCVALAGTDSPFPMAMGLFLPALAAVALWAALRSRANAGAESKMQ
SIO_010081: BVG79_RS13300
subclass of: SO_0000673
so part of: BVG79_RS13300
location: complement(1321..2538)
location: region:1321-2538:-1
so has part: feature:1321-2538:-1:exon

WP_085787611.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1321-2538:-1:exon

BVG79_RS13305
type: Gene
subclass of: SO_0000704
RO_0002162: 92947
locus tag: BVG79_RS13305
old locus tag: BVG79_p3000004
so part of: sequence
location: 2655..3233
location: region:2655-3233:1
so has part: feature:2655-3233:1:exon
subclass of: SO_0000010

position:2655:1
position: 2655
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3233:1
position: 3233
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2655-3233:1:exon

BVG79_RS13305
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 92947
locus tag: BVG79_RS13305
old locus tag: BVG79_p3000004
inference: COORDINATES: similar to AA sequence:RefSeq:WP_009813581.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: TetR/AcrR family transcriptional regulator
translation: MQEVRSGPGRPKDPVVAEAIRKAALRLVRERGYRNVSIGAIAQAAGVARQTLYNRWHAKADLILDAVFEETGRRADDQLPLETGDASRDRLERLLIGVFNHLRADGDTLRALIAAAQEDSEFREAFRERFVAPRETIVTDILAEALRRGELSREADPDTLSTMIHGAFWYRLLNGRELDHELARSIARSVFP
SIO_010081: BVG79_RS13305
subclass of: SO_0000673
so part of: BVG79_RS13305
location: 2655..3233
location: region:2655-3233:1
so has part: feature:2655-3233:1:exon

WP_085787612.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2655-3233:1:exon

BVG79_RS13310
type: Gene
subclass of: SO_0000704
RO_0002162: 92947
locus tag: BVG79_RS13310
old locus tag: BVG79_p3000005
so part of: sequence
location: complement(3523..4779)
location: region:3523-4779:-1
so has part: feature:3523-4779:-1:exon
subclass of: SO_0000010

position:3523:-1
position: 3523
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4779:-1
position: 4779
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3523-4779:-1:exon

BVG79_RS13310
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 92947
locus tag: BVG79_RS13310
old locus tag: BVG79_p3000005
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: MAIYHLRATMISRSSGRSATAAAAYRVGERIEDHRTGLTFDYRARGGVDHVETLAPANAPAWVQDREALWNAVEAAETRKNSQVAREIRVALPAELDHGQRVELVREFCQREFVARGMVADIALHAPGRTGDDRNHHAHILLTTREIGPEGFGAKNRDWNAVEMLEGWREAWARDSNRALERCGHEERIDHRTLEAQRIEAQERASAAHDRGDEAEALRQTVRAVELDRDPLPQLSAGAWQMKERGIEVGAVRVWREVKAQAAEVARVAEVLAGQVRDWIGRAVDRLGPLTQEGAAQGLAYAGAADRDGREGRQDLAARLREAWEARQSRTASDAIAAPGQTPEPESSRSLAERLREAAQGIDRGTLAEAAARLQESREAEERQRVQEAERLKEQERQQERLREREARDHDRDGGLTH
SIO_010081: BVG79_RS13310
subclass of: SO_0000673
so part of: BVG79_RS13310
location: complement(3523..4779)
location: region:3523-4779:-1
so has part: feature:3523-4779:-1:exon

WP_085787613.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3523-4779:-1:exon

BVG79_RS13315
type: Gene
subclass of: SO_0000704
RO_0002162: 92947
locus tag: BVG79_RS13315
old locus tag: BVG79_p3000006
so part of: sequence
location: 4933..5199
location: region:4933-5199:1
so has part: feature:4933-5199:1:exon
subclass of: SO_0000010

position:4933:1
position: 4933
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5199:1
position: 5199
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4933-5199:1:exon

BVG79_RS13315
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 92947
locus tag: BVG79_RS13315
old locus tag: BVG79_p3000006
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: MARTIDQQIADAQAKLARLKTRQKASDTRRKIIVGAIVTTEALKDPKISKWLASTLRKNATRDVDQKEIAGLLADLDARAQSAGAGEA
SIO_010081: BVG79_RS13315
subclass of: SO_0000673
so part of: BVG79_RS13315
location: 4933..5199
location: region:4933-5199:1
so has part: feature:4933-5199:1:exon

WP_085787614.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4933-5199:1:exon

BVG79_RS13320
type: Gene
subclass of: SO_0000704
RO_0002162: 92947
locus tag: BVG79_RS13320
old locus tag: BVG79_p3000007
so part of: sequence
location: 5196..5762
location: region:5196-5762:1
so has part: feature:5196-5762:1:exon
subclass of: SO_0000010

position:5196:1
position: 5196
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5762:1
position: 5762
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5196-5762:1:exon

BVG79_RS13320
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 92947
locus tag: BVG79_RS13320
old locus tag: BVG79_p3000007
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: MSGSTDPFLVLVDDIGALRRQIENLQRTSLDRDEAEHLNATIAQSLDNMAQTGKRLEQRLEGQLQLATAKTHRDAIEAAQGAARAAIRESHAEILQTARSLSQAAGEARREAWRWFGGFWVWLASIGAAGALVGALAVFWLQGRADAKAFGQYPSIYCTTAGGAFADQRDGSRYCIFMISPPTQPDGE
SIO_010081: BVG79_RS13320
subclass of: SO_0000673
so part of: BVG79_RS13320
location: 5196..5762
location: region:5196-5762:1
so has part: feature:5196-5762:1:exon

WP_085787615.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5196-5762:1:exon

BVG79_RS13325
type: Gene
subclass of: SO_0000704
RO_0002162: 92947
locus tag: BVG79_RS13325
old locus tag: BVG79_p3000008
so part of: sequence
location: complement(5767..6063)
location: region:5767-6063:-1
so has part: feature:5767-6063:-1:exon
subclass of: SO_0000010

position:5767:-1
position: 5767
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6063:-1
position: 6063
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5767-6063:-1:exon

BVG79_RS13325
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 92947
locus tag: BVG79_RS13325
old locus tag: BVG79_p3000008
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014129874.1
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: putative addiction module antidote protein
translation: MPEEKFARYDSADYLKTEEDIAAYLEAVMEDGGDDPAYVARALGVVARARNMTALAREVGMSRVGLNKALSGDGNPTLSTVMKVAKALGLKVSIQPGA
SIO_010081: BVG79_RS13325
subclass of: SO_0000673
so part of: BVG79_RS13325
location: complement(5767..6063)
location: region:5767-6063:-1
so has part: feature:5767-6063:-1:exon

WP_085787616.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5767-6063:-1:exon

BVG79_RS13330
type: Gene
subclass of: SO_0000704
RO_0002162: 92947
locus tag: BVG79_RS13330
so part of: sequence
location: complement(6067..6363)
location: region:6067-6363:-1
so has part: feature:6067-6363:-1:exon
subclass of: SO_0000010

position:6067:-1
position: 6067
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6363:-1
position: 6363
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6067-6363:-1:exon

BVG79_RS13330
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 92947
locus tag: BVG79_RS13330
inference: COORDINATES: similar to AA sequence:RefSeq:WP_002813764.1
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: MIELIRSGTFDTWLSGLRDRRAVARITARLDRLAAGNPGDVEPVGEGVSELRINYGPGYRVYFIQRGPVLVILLCGGDKSTQSKDIKQAKVLAAEWKG
SIO_010081: BVG79_RS13330
subclass of: SO_0000673
so part of: BVG79_RS13330
location: complement(6067..6363)
location: region:6067-6363:-1
so has part: feature:6067-6363:-1:exon

WP_085787617.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6067-6363:-1:exon