Planococcus antarcticus DSM 14505 plasmid pPA05-2, complete sequence.
type: Entry
definition: Planococcus antarcticus DSM 14505 plasmid pPA05-2, complete sequence.
sequence version: NZ_CP016536.1
sequence date: 2022-12-19
sequence: sequence
division: CON
label: NZ_CP016536.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN05366139
keyword: RefSeq
source: Planococcus antarcticus DSM 14505
organism: Planococcus antarcticus DSM 14505
taxonomy: Bacteria; Firmicutes; Bacilli; Bacillales; Planococcaceae; Planococcus.
reference: 1
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP016536.1.\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/\nThis genome has a base modification file available.\n\n##Genome-Assembly-Data-START##\nAssembly Method :: HGAP v. 2\nGenome Coverage :: 143.77\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/19/2022 13:12:08\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) :: 3,770\nCDSs (total) :: 3,666\nGenes (coding) :: 3,549\nCDSs (with protein) :: 3,549\nGenes (RNA) :: 104\nrRNAs :: 10, 9, 9 (5S, 16S, 23S)\ncomplete rRNAs :: 10, 9, 9 (5S, 16S, 23S)\ntRNAs :: 72\nncRNAs :: 4\nPseudo Genes (total) :: 117\nCDSs (without protein) :: 117\nPseudo Genes (ambiguous residues) :: 0 of 117\nPseudo Genes (frameshifted) :: 55 of 117\nPseudo Genes (incomplete) :: 47 of 117\nPseudo Genes (internal stop) :: 52 of 117\nPseudo Genes (multiple problems) :: 33 of 117\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 8070
topology: circular
so has quality: SO_0000988
location: 1..8070
location: region:1-8070:1
RO_0002162: 1185653

NZ_CP016536
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN05366139
type: BioSample
SIO_000068: biosample

1
title: Direct Submission
author: See-Too, W.S.
journal: Submitted (11-JUL-2016) Institute of Biological Sciences, University of Malaya, University of Malaya, Kuala Lumpur 50603, Malaysia

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

position:8070:1
position: 8070
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-8070:1:source
so part of: sequence
organism: Planococcus antarcticus DSM 14505
mol type: genomic DNA
strain: DSM 14505
isolation source: cyanobacterial mat sample of Antarctic lake
culture collection: DSM:14505
type material: type strain of Planococcus antarcticus
plasmid: pPA05-2
country: Antarctica: Wright Valley, E4, Lake Canopus, McMurdo
lat lon: 77.52 S 160.76 E
collection date: 1976/1986

1185653
type: Taxonomy
SIO_000068: taxonomy

BBH88_RS18630
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
locus tag: BBH88_RS18630
old locus tag: BBH88_18765
so part of: sequence
location: complement(join(8056..8070,1..504))
location: region:1-8070:-1
so has part: feature:1-504:-1:exon
so has part: feature:8056-8070:-1:exon
subclass of: SO_0000010

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

position:8070:-1
position: 8070
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-504:-1:exon

position:504:-1
position: 504
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:8056-8070:-1:exon

position:8056:-1
position: 8056
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

BBH88_RS18630
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
locus tag: BBH88_RS18630
old locus tag: BBH88_18765
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
GO function: GO:0003677 - DNA binding [Evidence IEA]
GO process: GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: MerR family transcriptional regulator
translation: MDEWYTVGELAEKTGIAEPTLRRYITKFHLYFISKGGNRAKKYKATAIPVLVRIKALYDAGYETTGLTDVLRSEFPVVINDNKHGETEEIQSARPLATTEDVAELKRVLTEVNQKLAKQEEFNTLLIQKLEDQNRFIKESLENKAPLFLEKKMDEEEAAKPVEESKKGCFYS
SIO_010081: BBH88_RS18630
subclass of: SO_0000673
so part of: BBH88_RS18630
location: complement(join(8056..8070,1..504))
location: region:1-8070:-1
so has part: feature:1-504:-1:exon
so has part: feature:8056-8070:-1:exon

WP_071349159.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-504:-1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:8056-8070:-1:exon

BBH88_RS18635
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
locus tag: BBH88_RS18635
old locus tag: BBH88_18770
so part of: sequence
location: 1156..1434
location: region:1156-1434:1
so has part: feature:1156-1434:1:exon
subclass of: SO_0000010

position:1156:1
position: 1156
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1434:1
position: 1434
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1156-1434:1:exon

BBH88_RS18635
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
locus tag: BBH88_RS18635
old locus tag: BBH88_18770
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: MLKKIYSILSAICFALMILPFALPSSPGSFDLLVFIMEINFYLPLIFGVAGIVLGLLGLKGNVRLYLVSFNACGLGIYLFLTFVAIFGFKEP
SIO_010081: BBH88_RS18635
subclass of: SO_0000673
so part of: BBH88_RS18635
location: 1156..1434
location: region:1156-1434:1
so has part: feature:1156-1434:1:exon

WP_065537445.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1156-1434:1:exon

BBH88_RS18645
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
locus tag: BBH88_RS18645
old locus tag: BBH88_18780
so part of: sequence
location: complement(1839..2165)
location: region:1839-2165:-1
so has part: feature:1839-2165:-1:exon
subclass of: SO_0000010

position:1839:-1
position: 1839
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2165:-1
position: 2165
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1839-2165:-1:exon

BBH88_RS18645
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
locus tag: BBH88_RS18645
old locus tag: BBH88_18780
inference: COORDINATES: protein motif:HMM:NF025120.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: helix-turn-helix transcriptional regulator
translation: MSFLESYVAENLKDPEFAKEWADSELEYTIARNIIRRRNRLGLTQSEVASRMHTKQNVVSRIENGSQNVTLKSLKSLAAALQTDVPSLMQEYDENQDEQTNSSNLVKS
SIO_010081: BBH88_RS18645
subclass of: SO_0000673
so part of: BBH88_RS18645
location: complement(1839..2165)
location: region:1839-2165:-1
so has part: feature:1839-2165:-1:exon

WP_065537447.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1839-2165:-1:exon

BBH88_RS18650
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
locus tag: BBH88_RS18650
old locus tag: BBH88_18785
so part of: sequence
location: complement(2162..2530)
location: region:2162-2530:-1
so has part: feature:2162-2530:-1:exon
subclass of: SO_0000010

position:2162:-1
position: 2162
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2530:-1
position: 2530
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2162-2530:-1:exon

BBH88_RS18650
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
locus tag: BBH88_RS18650
old locus tag: BBH88_18785
inference: COORDINATES: similar to AA sequence:RefSeq:WP_008753764.1
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: MEKPKWTVNAYKKDNGEEPAAEFLNSLPAKEKAKVLRTIQLLGEFGPMLRMPHRRPIDQDIYELRTVLGSNIFRVFHFHYENGEFILLNGFRKKTGKTPTGEIERAKRYRDDYLRQKGRDST
SIO_010081: BBH88_RS18650
subclass of: SO_0000673
so part of: BBH88_RS18650
location: complement(2162..2530)
location: region:2162-2530:-1
so has part: feature:2162-2530:-1:exon

WP_065537448.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2162-2530:-1:exon

BBH88_RS18655
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
locus tag: BBH88_RS18655
old locus tag: BBH88_18790
so part of: sequence
location: 2723..2902
location: region:2723-2902:1
so has part: feature:2723-2902:1:exon
subclass of: SO_0000010

position:2723:1
position: 2723
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2902:1
position: 2902
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2723-2902:1:exon

BBH88_RS18655
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
locus tag: BBH88_RS18655
old locus tag: BBH88_18790
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: MKKRLKDAIIIAIMTFVVSFILFFILFGEIRWVSLMGTALGAFIGSYFLLPLLNKRNAN
SIO_010081: BBH88_RS18655
subclass of: SO_0000673
so part of: BBH88_RS18655
location: 2723..2902
location: region:2723-2902:1
so has part: feature:2723-2902:1:exon

WP_065537449.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2723-2902:1:exon

BBH88_RS19330
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
locus tag: BBH88_RS19330
so part of: sequence
location: 2954..3127
location: region:2954-3127:1
so has part: feature:2954-3127:1:exon
subclass of: SO_0000010

position:2954:1
position: 2954
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3127:1
position: 3127
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2954-3127:1:exon

BBH88_RS19330
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
locus tag: BBH88_RS19330
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: MMIKFVLMFLGVWIVLTPLFLLFGADPRDIFNIFIATLLANIILFTYAKIRNKRTSP
SIO_010081: BBH88_RS19330
subclass of: SO_0000673
so part of: BBH88_RS19330
location: 2954..3127
location: region:2954-3127:1
so has part: feature:2954-3127:1:exon

WP_154669224.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2954-3127:1:exon

BBH88_RS18660
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
locus tag: BBH88_RS18660
old locus tag: BBH88_18795
pseudo: true
so part of: sequence
location: 3390..3953
location: region:3390-3953:1
so has part: feature:3390-3953:1:exon
subclass of: SO_0000010

position:3390:1
position: 3390
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3953:1
position: 3953
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3390-3953:1:exon

BBH88_RS18660
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
locus tag: BBH88_RS18660
old locus tag: BBH88_18795
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006830820.1
note: internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: site-specific integrase
SIO_010081: BBH88_RS18660
subclass of: SO_0000673
so part of: BBH88_RS18660
location: 3390..3953
location: region:3390-3953:1
so has part: feature:3390-3953:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:3390-3953:1:exon

BBH88_RS18670
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
gene: mobC
locus tag: BBH88_RS18670
old locus tag: BBH88_18805
so part of: sequence
location: 4418..4747
location: region:4418-4747:1
so has part: feature:4418-4747:1:exon
subclass of: SO_0000010

position:4418:1
position: 4418
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4747:1
position: 4747
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4418-4747:1:exon

BBH88_RS18670
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
gene: mobC
locus tag: BBH88_RS18670
old locus tag: BBH88_18805
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010620826.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: plasmid mobilization relaxosome protein MobC
translation: MGENRKENRQIKFRVNDLEFQKLEQMAQASGMSVPTFCKKQAQGARMTPPKIDREGAFEMARQLRAIGNNVNQLSKRANEGVAVPKEDVQRIEKELQALWQQFNSAIQK
SIO_010081: BBH88_RS18670
subclass of: SO_0000673
so part of: BBH88_RS18670
location: 4418..4747
location: region:4418-4747:1
so has part: feature:4418-4747:1:exon

WP_065537451.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4418-4747:1:exon

BBH88_RS18675
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
locus tag: BBH88_RS18675
old locus tag: BBH88_18810
so part of: sequence
location: 4714..5880
location: region:4714-5880:1
so has part: feature:4714-5880:1:exon
subclass of: SO_0000010

position:4714:1
position: 4714
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5880:1
position: 5880
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4714-5880:1:exon

BBH88_RS18675
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
locus tag: BBH88_RS18675
old locus tag: BBH88_18810
inference: COORDINATES: protein motif:HMM:NF015397.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: relaxase/mobilization nuclease domain-containing protein
translation: MATIQLGNTKVATKLISYAEKRAKERSGVDCPAEYAKAQFKATRELWGKTEGIQAHHVIQSFKPGEVTAKTANEIGQDLARNIAKGHEAVVYTHTDKDHIHNHIVINAVSFENGSKYQSSKKDLYKIREQSDQLCLAKGLSIVKEPTAQIRYTLAEKALLEKGKDSWKDEIRESIDSIKGQATSLPDLAHQLKAQFGIETKITNKNISFKHPDFERFVRGTKLGLAYEKETLTHEFERQIERGQERGSASLSDAASAELERTGKTDEGNERTQHPDEKLHSGSHGQGRDQSNDVGQRTGQNHESQSGSAGTDDFDFESAREHAARLRESASAALGDWQERDGSEQRNDRPENGRDRGHVGQQHEPAESQNERKHERPRDKERDLGPER
SIO_010081: BBH88_RS18675
subclass of: SO_0000673
so part of: BBH88_RS18675
location: 4714..5880
location: region:4714-5880:1
so has part: feature:4714-5880:1:exon

WP_065537452.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4714-5880:1:exon

BBH88_RS18680
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
locus tag: BBH88_RS18680
old locus tag: BBH88_18815
so part of: sequence
location: complement(6096..6926)
location: region:6096-6926:-1
so has part: feature:6096-6926:-1:exon
subclass of: SO_0000010

position:6096:-1
position: 6096
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6926:-1
position: 6926
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6096-6926:-1:exon

BBH88_RS18680
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
locus tag: BBH88_RS18680
old locus tag: BBH88_18815
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: cytosolic protein
translation: MGKSFGQLFPNKRKQVLDEIIYLLSGTGICKIGADKLAEKVNCSVRTVKSAVASIKQTDQLVVARLADDKAGKYIFVYKEHPNFHQILKEVFFLDSLPVSDAIAPPSAPLVAPLQNAEPVEAVSAKGQKTSSNHINSFNSLQERDSIQQAIENDVQDSNQNQEKIREKLQAYRANEYQLMLFDEIMAFPFPNSIKTVAGTIALRVGMDCDEKKVLRAIQLLNKMAINMVNGVEIRNIVAVFSDGMVNQRYLLSPKLPVQQPKTPKVPFYNWLEDRG
SIO_010081: BBH88_RS18680
subclass of: SO_0000673
so part of: BBH88_RS18680
location: complement(6096..6926)
location: region:6096-6926:-1
so has part: feature:6096-6926:-1:exon

WP_154669225.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6096-6926:-1:exon

BBH88_RS18685
type: Gene
subclass of: SO_0000704
RO_0002162: 1185653
locus tag: BBH88_RS18685
old locus tag: BBH88_18820
so part of: sequence
location: complement(7488..8015)
location: region:7488-8015:-1
so has part: feature:7488-8015:-1:exon
subclass of: SO_0000010

position:7488:-1
position: 7488
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:8015:-1
position: 8015
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7488-8015:-1:exon

BBH88_RS18685
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1185653
locus tag: BBH88_RS18685
old locus tag: BBH88_18820
inference: COORDINATES: protein motif:HMM:NF024803.2
GO function: GO:0003677 - DNA binding [Evidence IEA]
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: MerR family transcriptional regulator
translation: MDEWYTVGELAEKTGIAEPTLRRYITKFHLYFISKGGNRAKKYKATAIPVLVRIKALYDAGYETTGLTDVLRSEFPVVINDNKHGETEEIQSARPLATTEDVAELKRVLTEVNQKLAKQEEFNTLLIQKLEDQNRFIKESLENKAPLFLEKKMDEEEAAKPVEESKKGFWNRFFK
SIO_010081: BBH88_RS18685
subclass of: SO_0000673
so part of: BBH88_RS18685
location: complement(7488..8015)
location: region:7488-8015:-1
so has part: feature:7488-8015:-1:exon

WP_065537454.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7488-8015:-1:exon