Psychromicrobium lacuslunae strain IHBB 11108 plasmid pAG001, complete sequence.
type: Entry
definition: Psychromicrobium lacuslunae strain IHBB 11108 plasmid pAG001, complete sequence.
sequence version: NZ_CP011006.1
sequence date: 2022-12-07
sequence: sequence
division: CON
label: NZ_CP011006.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN03366954
keyword: RefSeq
source: Psychromicrobium lacuslunae
organism: Psychromicrobium lacuslunae
taxonomy: Bacteria; Actinobacteria; Micrococcales; Micrococcaceae; Psychromicrobium.
reference: 1
references: 25908143
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP011006.1.\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 :: 2015\nAssembly Method :: HGAP v. 2.0\nAssembly Name :: Arthrobacter Genome Assembly\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 282.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/07/2022 19:50:09\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,390\nCDSs (total) :: 3,336\nGenes (coding) :: 3,313\nCDSs (with protein) :: 3,313\nGenes (RNA) :: 54\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 45\nncRNAs :: 3\nPseudo Genes (total) :: 23\nCDSs (without protein) :: 23\nPseudo Genes (ambiguous residues) :: 0 of 23\nPseudo Genes (frameshifted) :: 4 of 23\nPseudo Genes (incomplete) :: 18 of 23\nPseudo Genes (internal stop) :: 1 of 23\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 3716
topology: circular
so has quality: SO_0000988
location: 1..3716
location: region:1-3716:1
RO_0002162: 1618207

NZ_CP011006
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN03366954
type: BioSample
SIO_000068: biosample

1
title: Complete Genome Sequencing of Protease-Producing Novel Arthrobacter sp. Strain IHBB 11108 Using PacBio Single-Molecule Real-Time Sequencing Technology
author: Kiran, S.
author: Swarnkar, M.K.
author: Pal, M.
author: Thakur, R.
author: Tewari, R.
author: Singh, A.K.
author: Gulati, A.
journal: Genome Announc 3 (2), e00346-15 (2015)
pubmed: 25908143
comments: Publication Status: Online-Only

25908143
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Kiran, S.
author: Swarnkar, M.K.
author: Pal, M.
author: Thakur, R.
author: Tewari, R.
author: Singh, A.K.
author: Gulati, A.
journal: Submitted (04-MAR-2015) Division of Biotechnology, CSIR-Institute of Himalayan Bioresource Technology, PO Box 06, Palampur, HP 176061, India

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

position:3716:1
position: 3716
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-3716:1:source
so part of: sequence
organism: Psychromicrobium lacuslunae
mol type: genomic DNA
strain: IHBB 11108
isolation source: water from surface of lake
culture collection: MCC:2780
type material: type strain of Psychromicrobium lacuslunae
plasmid: pAG001
country: India: Chandra Tal lake at Lahual and Spiti
lat lon: 32.29 N 77.36 E
collection date: 2011-09-23
collected by: Shashi Kiran
identified by: Shashi Kiran

1618207
type: Taxonomy
SIO_000068: taxonomy

UM93_RS16905
type: Gene
subclass of: SO_0000704
RO_0002162: 1618207
gene: bla
locus tag: UM93_RS16905
old locus tag: UM93_16900
pseudo: true
so part of: sequence
location: join(<3712..3716,1..658)
location: region:1-3716:1
so has part: feature:3712-3716:1:exon
so has part: feature:1-658:1:exon
subclass of: SO_0000010

urn:…
SIO_000300: 1
SIO_000628: feature:3712-3716:1:exon

position:3712:1
position: 3712
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

urn:…
SIO_000300: 2
SIO_000628: feature:1-658:1:exon

position:658:1
position: 658
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

UM93_RS16905
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1618207
gene: bla
locus tag: UM93_RS16905
old locus tag: UM93_16900
inference: COORDINATES: similar to AA sequence:RefSeq:WP_032489893.1
GO function: GO:0008800 - beta-lactamase activity [Evidence IEA]
GO process: GO:0030655 - beta-lactam antibiotic catabolic process [Evidence IEA]; GO:0046677 - response to antibiotic [Evidence IEA]
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: class A beta-lactamase
SIO_010081: UM93_RS16905
subclass of: SO_0000673
so part of: UM93_RS16905
location: join(<3712..3716,1..658)
location: region:1-3716:1
so has part: feature:3712-3716:1:exon
so has part: feature:1-658:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:3712-3716:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:1-658:1:exon

UM93_RS16910
type: Gene
subclass of: SO_0000704
RO_0002162: 1618207
locus tag: UM93_RS16910
old locus tag: UM93_16905
so part of: sequence
location: complement(1845..2036)
location: region:1845-2036:-1
so has part: feature:1845-2036:-1:exon
subclass of: SO_0000010

position:1845:-1
position: 1845
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2036:-1
position: 2036
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1845-2036:-1:exon

UM93_RS16910
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1618207
locus tag: UM93_RS16910
old locus tag: UM93_16905
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000165985.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: Rop family plasmid primer RNA-binding protein
translation: MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHADELYRSCLARFGDDGENL
SIO_010081: UM93_RS16910
subclass of: SO_0000673
so part of: UM93_RS16910
location: complement(1845..2036)
location: region:1845-2036:-1
so has part: feature:1845-2036:-1:exon

WP_000165985.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1845-2036:-1:exon

UM93_RS16915
type: Gene
subclass of: SO_0000704
RO_0002162: 1618207
locus tag: UM93_RS16915
old locus tag: UM93_16910
so part of: sequence
location: 2068..2436
location: region:2068-2436:1
so has part: feature:2068-2436:1:exon
subclass of: SO_0000010

position:2068:1
position: 2068
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2436:1
position: 2436
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2068-2436:1:exon

UM93_RS16915
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1618207
locus tag: UM93_RS16915
old locus tag: UM93_16910
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000538659.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MGVMIPMKRERMLTIRVTDDEHARLLERCEGKQLAVWMRRDQRKITQGQCQRFVNTDVGVPQGSQQHPAMQIRNIMVQGADFRVSRLYETRKPKTIHVVAQVADVLQQQSLHVRSRIGDSFC
SIO_010081: UM93_RS16915
subclass of: SO_0000673
so part of: UM93_RS16915
location: 2068..2436
location: region:2068-2436:1
so has part: feature:2068-2436:1:exon

WP_000538659.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2068-2436:1:exon

UM93_RS17575
type: Gene
subclass of: SO_0000704
RO_0002162: 1618207
locus tag: UM93_RS17575
so part of: sequence
location: complement(2433..2771)
location: region:2433-2771:-1
so has part: feature:2433-2771:-1:exon
subclass of: SO_0000010

position:2433:-1
position: 2433
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2771:-1
position: 2771
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2433-2771:-1:exon

UM93_RS17575
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1618207
locus tag: UM93_RS17575
inference: COORDINATES: similar to AA sequence:RefSeq:WP_005291943.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MERVGMDCRRRPIPCLPPRVASRCMEPGHLDLNGSRRHLANGFTTPRIGANQFLRRTVNAQTNPWQNISIASAISSSRTRRISGSVGSWPRVRMIVLLSLRTRLGWRGCLTG
SIO_010081: UM93_RS17575
subclass of: SO_0000673
so part of: UM93_RS17575
location: complement(2433..2771)
location: region:2433-2771:-1
so has part: feature:2433-2771:-1:exon

WP_002310911.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2433-2771:-1:exon

UM93_RS16925
type: Gene
subclass of: SO_0000704
RO_0002162: 1618207
gene: tet
locus tag: UM93_RS16925
old locus tag: UM93_16920
pseudo: true
so part of: sequence
location: complement(2675..>3715)
location: region:2675-3715:-1
so has part: feature:2675-3715:-1:exon
subclass of: SO_0000010

position:2675:-1
position: 2675
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3715:-1
position: 3715
reference: sequence
type: ReverseStrandPosition
type: FuzzyPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2675-3715:-1:exon

UM93_RS16925
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1618207
gene: tet
locus tag: UM93_RS16925
old locus tag: UM93_16920
inference: COORDINATES: similar to AA sequence:RefSeq:WP_001297013.1
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: Tet(A)/Tet(B)/Tet(C) family tetracycline efflux MFS transporter
SIO_010081: UM93_RS16925
subclass of: SO_0000673
so part of: UM93_RS16925
location: complement(2675..>3715)
location: region:2675-3715:-1
so has part: feature:2675-3715:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:2675-3715:-1:exon