Paenalkalicoccus suaedae strain M4U3P1 plasmid unnamed2, complete sequence.
type: Entry
definition: Paenalkalicoccus suaedae strain M4U3P1 plasmid unnamed2, complete sequence.
sequence version: NZ_CP041371.1
sequence date: 2023-05-27
sequence: sequence
division: CON
label: NZ_CP041371.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN12167196
keyword: RefSeq
source: Paenalkalicoccus suaedae
organism: Paenalkalicoccus suaedae
taxonomy: Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Paenalkalicoccus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP041371.1.\nBacteria and source DNA available from Ji-Quan Sun.\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 :: Celera Assembler v. 2.3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 300.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/27/2023 03:24:52\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) :: 4,005\nCDSs (total) :: 3,907\nGenes (coding) :: 3,890\nCDSs (with protein) :: 3,890\nGenes (RNA) :: 98\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 71\nncRNAs :: 5\nPseudo Genes (total) :: 17\nCDSs (without protein) :: 17\nPseudo Genes (ambiguous residues) :: 0 of 17\nPseudo Genes (frameshifted) :: 4 of 17\nPseudo Genes (incomplete) :: 11 of 17\nPseudo Genes (internal stop) :: 3 of 17\nPseudo Genes (multiple problems) :: 1 of 17\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 5820
topology: circular
so has quality: SO_0000988
location: 1..5820
location: region:1-5820:1
RO_0002162: 2592382

NZ_CP041371
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN12167196
type: BioSample
SIO_000068: biosample

1
title: Bacillus alkalisoli sp. nov. isolated from saline soil
author: Sun, J.-Q.
author: Xu, L.
journal: Unpublished

2
title: Direct Submission
author: Sun, J.-Q.
author: Xu, L.
journal: Submitted (03-JUL-2019) School of Ecology and Environment, Inner Mongolia University, Daxuexijie #235, Hohhot, Inner Mongolia 010021, China

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

position:5820:1
position: 5820
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-5820:1:source
so part of: sequence
organism: Paenalkalicoccus suaedae
mol type: genomic DNA
strain: M4U3P1
host: Suaeda salsa
type material: type strain of Paenalkalicoccus suaedae
plasmid: unnamed2
country: China: Inner Mongolia
collection date: 2018-10

2592382
type: Taxonomy
SIO_000068: taxonomy

FLK61_RS00410
type: Gene
subclass of: SO_0000704
RO_0002162: 2592382
locus tag: FLK61_RS00410
so part of: sequence
location: 78..239
location: region:78-239:1
so has part: feature:78-239:1:exon
subclass of: SO_0000010

position:78:1
position: 78
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:239:1
position: 239
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:78-239:1:exon

FLK61_RS00410
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2592382
locus tag: FLK61_RS00410
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014475552.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSDFETGMRYVRATLGFEGLVLTEEEEKLLERRFHGEITEEEYIQKAFELSLM
SIO_010081: FLK61_RS00410
subclass of: SO_0000673
so part of: FLK61_RS00410
location: 78..239
location: region:78-239:1
so has part: feature:78-239:1:exon

WP_014475552.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:78-239:1:exon

FLK61_RS00415
type: Gene
subclass of: SO_0000704
RO_0002162: 2592382
locus tag: FLK61_RS00415
old locus tag: FLK61_00400
so part of: sequence
location: 1156..2175
location: region:1156-2175:1
so has part: feature:1156-2175:1:exon
subclass of: SO_0000010

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

position:2175:1
position: 2175
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1156-2175:1:exon

FLK61_RS00415
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2592382
locus tag: FLK61_RS00415
old locus tag: FLK61_00400
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017473913.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: protein rep
translation: MYSSENDYIILEDKTATGKKRDWKGKKRRTNLMAEHYEALQSKTGIPYYGKKAEKLCSCAECLSFKRDPETGKLKLYQAQFCKVRLCPMCAWRRSLKIAYHNKLIVEEANRQYGCGWIFLTLTVRNVEGDGLKPMIADMMKGWNRLFGYKRVKVATLGYFRALEITKNHEEDTYHPHFHVLLPVKKSYFTHNYIKQSEWTSLWKRAMKLDYTPIVDIRRVKGRAKIDAEQIESDVREAMMEQKAVLEISKYPVKDTDVVRGNKVTEDNLNTVFYLDDALSARRLIGYGGILKEIHKELNLGDAEDGDLVKIEEEDDEVANEAFEVMAYWHPGIKNYIIR
SIO_010081: FLK61_RS00415
subclass of: SO_0000673
so part of: FLK61_RS00415
location: 1156..2175
location: region:1156-2175:1
so has part: feature:1156-2175:1:exon

WP_010890183.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1156-2175:1:exon

FLK61_RS00420
type: Gene
subclass of: SO_0000704
RO_0002162: 2592382
locus tag: FLK61_RS00420
old locus tag: FLK61_00405
so part of: sequence
location: 2392..2832
location: region:2392-2832:1
so has part: feature:2392-2832:1:exon
subclass of: SO_0000010

position:2392:1
position: 2392
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2832:1
position: 2832
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2392-2832:1:exon

FLK61_RS00420
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2592382
locus tag: FLK61_RS00420
old locus tag: FLK61_00405
inference: COORDINATES: similar to AA sequence:RefSeq:WP_015388801.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MVTTIGKSKMWVGIIVVLSLLLVSFSPAVKADTKDKYYSTTSTQSSTKSYRKANTSGVYVKVLKAGRSRDVAISVFADANKGKGKPHWVNVSGSDGATLGKYVTAGHTYHLTNYAVERYGKNVPIQLFVSNGSGKKVEFYWSPDCR
SIO_010081: FLK61_RS00420
subclass of: SO_0000673
so part of: FLK61_RS00420
location: 2392..2832
location: region:2392-2832:1
so has part: feature:2392-2832:1:exon

WP_010890184.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2392-2832:1:exon

FLK61_RS00425
type: Gene
subclass of: SO_0000704
RO_0002162: 2592382
gene: lepB
locus tag: FLK61_RS00425
old locus tag: FLK61_00410
so part of: sequence
location: 2936..3496
location: region:2936-3496:1
so has part: feature:2936-3496:1:exon
subclass of: SO_0000010

position:2936:1
position: 2936
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3496:1
position: 3496
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2936-3496:1:exon

FLK61_RS00425
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2592382
gene: lepB
locus tag: FLK61_RS00425
old locus tag: FLK61_00410
EC number: 3.4.21.89
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010890185.1
GO function: GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
GO process: GO:0009306 - protein secretion [Evidence IEA]; GO:0006465 - signal peptide processing [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: signal peptidase I
translation: MTKEKVFKKKSSILEWGKAIVIAVILALLIRNFLFEPYVVEGKSMDPTLVDSERLFVNKTVKYTGNFKRGDIIILNGKEKSTHYVKRLIGLPGDTVEMKNDHLFINGNEVKEPYLSYNKENAKKVGINLTGDFGPIKVPKDKYFVMGDNRQESMDSRNGLGLFTKDDIQGTEEFVFFPFSNMRKAK
SIO_010081: FLK61_RS00425
subclass of: SO_0000673
so part of: FLK61_RS00425
location: 2936..3496
location: region:2936-3496:1
so has part: feature:2936-3496:1:exon

WP_010890185.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2936-3496:1:exon

FLK61_RS00430
type: Gene
subclass of: SO_0000704
RO_0002162: 2592382
gene: mobV
locus tag: FLK61_RS00430
old locus tag: FLK61_00415
so part of: sequence
location: 3831..5279
location: region:3831-5279:1
so has part: feature:3831-5279:1:exon
subclass of: SO_0000010

position:3831:1
position: 3831
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5279:1
position: 5279
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3831-5279:1:exon

FLK61_RS00430
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2592382
gene: mobV
locus tag: FLK61_RS00430
old locus tag: FLK61_00415
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011255099.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
GO process: GO:0006310 - DNA recombination [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: MobV family relaxase
translation: MANYAVIRMEKYKKDRLNGTQKHNQREFQKSKNENIDRERTHLNYDLVNEKPISYSKAIHEKIEGRVKRKVRADAVLVSEFLITASPDYMNGLSDEEQRRYFETAVDHLKEKYSAENMLYATVHMDEATPHMHVGIVPITEDGRLSAKDFFNGKLKMKAIQDDFHRHMVENGFDLVRGEPSEKKHENVHQYKINQRQAELERLNAEIALKEKQREELEKQNKAVQAVIEVKKESLTAKAEELKMPTIEHEKAWLKKDKVIVPERELHALYAYAEQKTKTAAELAGQLKSETQEKERWQSIARQEADRADEKDQRLQELQSRIHSEVEASKKEMRRKLAKEFTEEQRQDLRQEVKEELTTLRTENEELSAENKVLIIQRNSEAAESLKLKQELDKRNGQYAEVLSFAKKQNQTLEKVAGENKALKKENKTLKERVAVLEQWKDKMVQWAKEKLPKMRKLAASFFRTAGMPREANKYKDNELER
SIO_010081: FLK61_RS00430
subclass of: SO_0000673
so part of: FLK61_RS00430
location: 3831..5279
location: region:3831-5279:1
so has part: feature:3831-5279:1:exon

WP_011255099.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3831-5279:1:exon

FLK61_RS00435
type: Gene
subclass of: SO_0000704
RO_0002162: 2592382
locus tag: FLK61_RS00435
old locus tag: FLK61_00420
so part of: sequence
location: complement(5290..5769)
location: region:5290-5769:-1
so has part: feature:5290-5769:-1:exon
subclass of: SO_0000010

position:5290:-1
position: 5290
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5769:-1
position: 5769
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5290-5769:-1:exon

FLK61_RS00435
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2592382
locus tag: FLK61_RS00435
old locus tag: FLK61_00420
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010890187.1
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: MDMGIKLSSKDVAKHLGIEPVTVRKYASMLEEQGYSFNKDSKGWRLYTEDDVKTLEYLCTMTKINGHSLDETVKHIASLYRSKLTISDTATSLQDNPLVEFMKRQEEFNRHMAERMERFEKRQQERHETLTAALRESLETQKMIAATKQKKWWKFWKGN
SIO_010081: FLK61_RS00435
subclass of: SO_0000673
so part of: FLK61_RS00435
location: complement(5290..5769)
location: region:5290-5769:-1
so has part: feature:5290-5769:-1:exon

WP_010890187.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5290-5769:-1:exon