Lactobacillus kefiranofaciens strain 1207 plasmid unnamed2, complete sequence.
type: Entry
definition: Lactobacillus kefiranofaciens strain 1207 plasmid unnamed2, complete sequence.
sequence version: NZ_CP061342.1
sequence date: 2023-04-28
sequence: sequence
division: CON
label: NZ_CP061342.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN16072876
keyword: RefSeq
source: Lactobacillus kefiranofaciens
organism: Lactobacillus kefiranofaciens
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Lactobacillus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP061342.1.\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 :: 2020\nAssembly Method :: ABySS v. 2.3\nAssembly Name :: UCLA_Agam_2.1 for version 2.1 of the\n Anopheles gambiae genome from a lab in\n UCLA\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 12.0x\nSequencing Technology :: Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/28/2023 11:03:42\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) :: 2,159\nCDSs (total) :: 2,078\nGenes (coding) :: 1,926\nCDSs (with protein) :: 1,926\nGenes (RNA) :: 81\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 63\nncRNAs :: 3\nPseudo Genes (total) :: 152\nCDSs (without protein) :: 152\nPseudo Genes (ambiguous residues) :: 0 of 152\nPseudo Genes (frameshifted) :: 89 of 152\nPseudo Genes (incomplete) :: 37 of 152\nPseudo Genes (internal stop) :: 47 of 152\nPseudo Genes (multiple problems) :: 19 of 152\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 4472
topology: circular
so has quality: SO_0000988
location: 1..4472
location: region:1-4472:1
RO_0002162: 267818

NZ_CP061342
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN16072876
type: BioSample
SIO_000068: biosample

1
title: Lactobacillus kefiranofaciens 1207 Genome sequencing and assembly
author: Wang, Y.
author: Geng, W.
author: Xing, Z.
author: Wang, J.
journal: Unpublished

2
title: Direct Submission
author: Wang, Y.
author: Geng, W.
author: Xing, Z.
author: Wang, J.
journal: Submitted (09-SEP-2020) Key Laboratory of Food Nutrition and Safety Ministry of Education, Tianjin University of Science and Technology, 1038 Dagu Nanlu, Hexi Distric, Tianjin, Tianjin 300457, China

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

position:4472:1
position: 4472
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-4472:1:source
so part of: sequence
organism: Lactobacillus kefiranofaciens
mol type: genomic DNA
strain: 1207
isolation source: Kefir
plasmid: unnamed2
country: China:Tianjin
collection date: 2015

267818
type: Taxonomy
SIO_000068: taxonomy

ICI50_RS10545
type: Gene
subclass of: SO_0000704
RO_0002162: 267818
locus tag: ICI50_RS10545
old locus tag: ICI50_10540
so part of: sequence
location: join(4227..4472,1..123)
location: region:1-4472:1
so has part: feature:4227-4472:1:exon
so has part: feature:1-123:1:exon
subclass of: SO_0000010

72687961
type: Gene
SIO_000068: ncbigene

urn:…
SIO_000300: 1
SIO_000628: feature:4227-4472:1:exon

position:4227:1
position: 4227
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:1-123:1:exon

position:123:1
position: 123
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

ICI50_RS10545
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 267818
locus tag: ICI50_RS10545
old locus tag: ICI50_10540
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: MFTEEQNKKLDVLDVRRNNGDFRRDFSKIVVVKLGVQPRPYFPKLKGSDGKPLKDANGNEKRSEQQRGWMYTFAEYTNCEPLRIILAKEMNLKRGLYVVSGRGYGSDGGSKFIDVDSHIANY
SIO_010081: ICI50_RS10545
subclass of: SO_0000673
so part of: ICI50_RS10545
location: join(4227..4472,1..123)
location: region:1-4472:1
so has part: feature:4227-4472:1:exon
so has part: feature:1-123:1:exon

WP_188892138.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4227-4472:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:1-123:1:exon

ICI50_RS10550
type: Gene
subclass of: SO_0000704
RO_0002162: 267818
locus tag: ICI50_RS10550
old locus tag: ICI50_10545
so part of: sequence
location: 229..1407
location: region:229-1407:1
so has part: feature:229-1407:1:exon
subclass of: SO_0000010

72687962
type: Gene
SIO_000068: ncbigene

position:229:1
position: 229
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1407:1
position: 1407
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:229-1407:1:exon

ICI50_RS10550
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 267818
locus tag: ICI50_RS10550
old locus tag: ICI50_10545
inference: COORDINATES: protein motif:HMM:NF014537.2
GO function: GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase 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 factor domain-containing protein
translation: MPDISTKTGPKKVRSNKLQIKVDWLSFTLPYSSDSDKGNQQFKMLKFLGYKLDDFEEGAGRFFYNSSISLDRYLTVYYDDFSKEVSKYSAKNILYVWTGQGSTDLAQKLLKKYKGKDWQSSWFAFFDYLKSIQAKVTRLDLAVDAYHHELNLFRMESKLKHGYYRSSKRRYNVIKQFDTEGNVKSFTIYVGQSRGKSSKSGGSFVRFYDKYAQSLSKAVVMPREVDDLVTGGGSHFWVRAEQQYNKERAQTCVDEILRQKSFGKVYMGTLRKTVEFLVPSKVNKDKKTWKVASKWEKFLQGCEKITLSNPERNLDLGRLLRWIRVAVVPSLHLLDELGKQRGFDIYELIKACKVDGYQKKQKRLFNDAMQMSDDLIIFYLKEFLRGYGSDEN
SIO_010081: ICI50_RS10550
subclass of: SO_0000673
so part of: ICI50_RS10550
location: 229..1407
location: region:229-1407:1
so has part: feature:229-1407:1:exon

WP_188892141.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:229-1407:1:exon

ICI50_RS10555
type: Gene
subclass of: SO_0000704
RO_0002162: 267818
locus tag: ICI50_RS10555
old locus tag: ICI50_10550
so part of: sequence
location: 1397..2752
location: region:1397-2752:1
so has part: feature:1397-2752:1:exon
subclass of: SO_0000010

72687963
type: Gene
SIO_000068: ncbigene

position:1397:1
position: 1397
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2752:1
position: 2752
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1397-2752:1:exon

ICI50_RS10555
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 267818
locus tag: ICI50_RS10555
old locus tag: ICI50_10550
inference: COORDINATES: protein motif:HMM:NF013727.2
GO function: GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: FtsK/SpoIIIE domain-containing protein
translation: MKINLFYFRNTQGIYYRPFWTYISFYVVLSAVVAVILQWILKALSMPIFHDLMSLDLLVLVASTVALFTYISVRSYQNRSILRFIDMAGFESAITRALIDTRNINRVKDVSYLLVPWIVCTWQDDKIRIEIAKIPSLRQAEIDDLSELVDSCLIGKYSNFAINLRIISDDRLEFKFFAENVGENKTFVPRTLQDLIQKPYELVLQKGLKINLAKSPHLAVWGASGSGKTTLLLSLIAQMLSCGTDLKFIDGKDEFSSLAKFYPSFKIVSAQDEILQMLAAICEKLIPARQKIVAAEVNKQKKFGLRGYDINLRPVVIVADEVGSVVGSMDNKQKKQFQSYLAQIAQKGRSISIFLIMASQSPATDVVSQSVRAQFSTKILLGSANGEIQRMAFGVSVDVGNVEKFRGYYTSDGLTVSPQKFFVPNLYKNRLNELNIFEKLYKIGFERIFAL
SIO_010081: ICI50_RS10555
subclass of: SO_0000673
so part of: ICI50_RS10555
location: 1397..2752
location: region:1397-2752:1
so has part: feature:1397-2752:1:exon

WP_244964972.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1397-2752:1:exon

ICI50_RS10560
type: Gene
subclass of: SO_0000704
RO_0002162: 267818
locus tag: ICI50_RS10560
old locus tag: ICI50_10555
so part of: sequence
location: complement(2796..3347)
location: region:2796-3347:-1
so has part: feature:2796-3347:-1:exon
subclass of: SO_0000010

72687964
type: Gene
SIO_000068: ncbigene

position:2796:-1
position: 2796
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3347:-1
position: 3347
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2796-3347:-1:exon

ICI50_RS10560
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 267818
locus tag: ICI50_RS10560
old locus tag: ICI50_10555
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: MQMYTIKDLFDMANKNYNLKISREDNPKEVKAIEKTIRRKLQAHDIKSPYKVNQDQAVYLINTEMKKYFFKKAEKSNPNLILDAEAYAQTTQENISQTLTYQEALINCKLDYLIQLLGSNDQQTIFFRADDFRKAYVEYRKHIDSNGFPMPGYTNAKGDLRASEKFFTALPFSNKPFKPEKKE
SIO_010081: ICI50_RS10560
subclass of: SO_0000673
so part of: ICI50_RS10560
location: complement(2796..3347)
location: region:2796-3347:-1
so has part: feature:2796-3347:-1:exon

WP_188892134.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2796-3347:-1:exon

ICI50_RS10565
type: Gene
subclass of: SO_0000704
RO_0002162: 267818
locus tag: ICI50_RS10565
old locus tag: ICI50_10560
so part of: sequence
location: 3526..3846
location: region:3526-3846:1
so has part: feature:3526-3846:1:exon
subclass of: SO_0000010

72687965
type: Gene
SIO_000068: ncbigene

position:3526:1
position: 3526
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3846:1
position: 3846
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3526-3846:1:exon

ICI50_RS10565
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 267818
locus tag: ICI50_RS10565
old locus tag: ICI50_10560
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: MNQQEAKIKLNELKTTDFWKDLLVSAKRLAATRSCWMSDENPDSPTNSTFVRWELNNLFERYQMDMDYDALEDQDYKYELGKIKELEKRIKQNPNKLEAWKNDKRK
SIO_010081: ICI50_RS10565
subclass of: SO_0000673
so part of: ICI50_RS10565
location: 3526..3846
location: region:3526-3846:1
so has part: feature:3526-3846:1:exon

WP_188892136.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3526-3846:1:exon