Halalkalicoccus jeotgali B3 plasmid 6, complete sequence.
type: Entry
definition: Halalkalicoccus jeotgali B3 plasmid 6, complete sequence.
sequence version: NC_014303.1
sequence date: 2023-07-30
sequence: sequence
division: CON
label: NC_014303.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN02603490
keyword: RefSeq
source: Halalkalicoccus jeotgali B3
organism: Halalkalicoccus jeotgali B3
taxonomy: Archaea; Euryarchaeota; Stenosarchaea group; Halobacteria; Halobacteriales; Halococcaceae; Halalkalicoccus.
reference: 1
references: 20601480
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP002068.1.\nThis archaeon was isolated in our laboratory, followed by\ndepositing this isolate into four culture collections (see the ref,\nIJSEM 2007, 57(10):2296-2298).\nGenome was manually curated based on annotation generated by the\nNCBI Prokaryotic Genomes Automatic Annotation Pipeline Group.\nInformation about the Pipeline can be found here:\nhttp://www.ncbi.nlm.nih.gov/genomes/static/Pipeline.html.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 07/30/2023 10:28:19\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) :: 3,920\nCDSs (total) :: 3,866\nGenes (coding) :: 3,795\nCDSs (with protein) :: 3,795\nGenes (RNA) :: 54\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 49\nncRNAs :: 2\nPseudo Genes (total) :: 71\nCDSs (without protein) :: 71\nPseudo Genes (ambiguous residues) :: 1 of 71\nPseudo Genes (frameshifted) :: 24 of 71\nPseudo Genes (incomplete) :: 50 of 71\nPseudo Genes (internal stop) :: 9 of 71\nPseudo Genes (multiple problems) :: 10 of 71\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 6951
topology: circular
so has quality: SO_0000988
location: 1..6951
location: region:1-6951:1
RO_0002162: 795797

NC_014303
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN02603490
type: BioSample
SIO_000068: biosample

1
title: Complete genome sequence of Halalkalicoccus jeotgali B3(T), an extremely halophilic archaeon
author: Roh, S.W.
author: Nam, Y.D.
author: Nam, S.H.
author: Choi, S.H.
author: Park, H.S.
author: Bae, J.W.
journal: J Bacteriol
volume: 192
issue: 17
pages: 4528-4529
year: 2010
pubmed: 20601480

20601480
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Roh, S.W.
author: Nam, Y.-D.
author: Nam, S.-H.
author: Choi, S.-H.
author: Park, H.-S.
author: Bae, J.-W.
journal: Submitted (07-JUN-2010) Department of Biology, Kyung Hee University, HoeGi-Dong 1, DongDaeMun-Gu, Seoul 130-701, Republic of Korea, Seoul, Seoul 130-701, Republic of Korea

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

position:6951:1
position: 6951
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-6951:1:source
so part of: sequence
organism: Halalkalicoccus jeotgali B3
mol type: genomic DNA
strain: B3
culture collection: CECT:7217
culture collection: DSM:DSM 18796
culture collection: JCM:14584
culture collection: KCTC:4019
type material: type strain of Halalkalicoccus jeotgali
plasmid: 6
note: type strain of Halalkalicoccus jeotgali

795797
type: Taxonomy
SIO_000068: taxonomy

HACJB3_RS18555
type: Gene
subclass of: SO_0000704
RO_0002162: 795797
locus tag: HACJB3_RS18555
old locus tag: HacjB3_19618
so part of: sequence
location: join(6663..6951,1..503)
location: region:1-6951:1
so has part: feature:6663-6951:1:exon
so has part: feature:1-503:1:exon
subclass of: SO_0000010

9385835
type: Gene
SIO_000068: ncbigene

urn:…
SIO_000300: 1
SIO_000628: feature:6663-6951:1:exon

position:6663:1
position: 6663
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:1-503:1:exon

position:503:1
position: 503
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

HACJB3_RS18555
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 795797
locus tag: HACJB3_RS18555
old locus tag: HacjB3_19618
inference: COORDINATES: similar to AA sequence:RefSeq:WP_008419263.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MTKPDETDADAANSAETNGATDMDDNADPNETSFVGTDVLTVAKDAVKAKRGHGGISEVIRDAINREAFGEQLNRRGQLEARREELVEKRAERREELREVTNRLEGEIDALGDEIDTLDTKLNSLTTREERYEAKLESLEYWLRVKGMRFDPGNGRLKEVAASAGREPEGVIQDLKLRNPDVPDVAFGDGDPGDTYNPPDSNQTALKSTESTGGDGEITPLRDREEIYREREPATETEPGTEPELIGDGSGDTQDNRPNNPDE
SIO_010081: HACJB3_RS18555
subclass of: SO_0000673
so part of: HACJB3_RS18555
location: join(6663..6951,1..503)
location: region:1-6951:1
so has part: feature:6663-6951:1:exon
so has part: feature:1-503:1:exon

WP_013199714.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6663-6951:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:1-503:1:exon

HACJB3_RS18560
type: Gene
subclass of: SO_0000704
RO_0002162: 795797
locus tag: HACJB3_RS18560
old locus tag: HacjB3_19623
so part of: sequence
location: 2185..2907
location: region:2185-2907:1
so has part: feature:2185-2907:1:exon
subclass of: SO_0000010

9385828
type: Gene
SIO_000068: ncbigene

position:2185:1
position: 2185
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2907:1
position: 2907
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2185-2907:1:exon

HACJB3_RS18560
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 795797
locus tag: HACJB3_RS18560
old locus tag: HacjB3_19623
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: MRYLNGSNTDESSITTNATPNASVVVRRTPDEMDANRGRERHPDAPRPPGNHPTAVRGLDPETGRAVWIDFGEDGGAEIVGPVVLPDGTLPDREPGAVGNRESAATATEPDRESPPGAIETAIGSDRLATLASVNPGRLGKLAGLDIGADRDTEANTEPDRESPTTESHRRASPVTGTLTALSPVKGVGSTDDTDANTESDTESNEDTERVGPDRVGAPTLAAYREAHADAESTDGEGDR
SIO_010081: HACJB3_RS18560
subclass of: SO_0000673
so part of: HACJB3_RS18560
location: 2185..2907
location: region:2185-2907:1
so has part: feature:2185-2907:1:exon

WP_008419259.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2185-2907:1:exon

HACJB3_RS18565
type: Gene
subclass of: SO_0000704
RO_0002162: 795797
locus tag: HACJB3_RS18565
old locus tag: HacjB3_19628
so part of: sequence
location: 2904..3368
location: region:2904-3368:1
so has part: feature:2904-3368:1:exon
subclass of: SO_0000010

9385829
type: Gene
SIO_000068: ncbigene

position:2904:1
position: 2904
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3368:1
position: 3368
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2904-3368:1:exon

HACJB3_RS18565
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 795797
locus tag: HACJB3_RS18565
old locus tag: HacjB3_19628
inference: COORDINATES: similar to AA sequence:RefSeq:WP_013199710.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSASARRHTDAELLRYAAQVSSEHGEPFSASSMAPKTDLSTDDLADQLLALSLDYETPASRRGKRDSYLPLRSVRVAGERVWFLAPPDEIERTDRLTGVRQAAILHKGDDLRVGSLNTQSLHGNRAWEPDRGDRRATELLAEHAPEWWREAADE
SIO_010081: HACJB3_RS18565
subclass of: SO_0000673
so part of: HACJB3_RS18565
location: 2904..3368
location: region:2904-3368:1
so has part: feature:2904-3368:1:exon

WP_013199710.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2904-3368:1:exon

HACJB3_RS18570
type: Gene
subclass of: SO_0000704
RO_0002162: 795797
locus tag: HACJB3_RS18570
old locus tag: HacjB3_19633
so part of: sequence
location: 3579..3860
location: region:3579-3860:1
so has part: feature:3579-3860:1:exon
subclass of: SO_0000010

9385830
type: Gene
SIO_000068: ncbigene

position:3579:1
position: 3579
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3860:1
position: 3860
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3579-3860:1:exon

HACJB3_RS18570
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 795797
locus tag: HACJB3_RS18570
old locus tag: HacjB3_19633
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: MTTHDIDISDDTSGKDAEISDIVSGIETCDRMIEMAESRLNGRIRNAEHERIRIQYIKAISTHLRTKRSYLKDRELEEMAETVADLEREIGRP
SIO_010081: HACJB3_RS18570
subclass of: SO_0000673
so part of: HACJB3_RS18570
location: 3579..3860
location: region:3579-3860:1
so has part: feature:3579-3860:1:exon

WP_013199711.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3579-3860:1:exon

HACJB3_RS18575
type: Gene
subclass of: SO_0000704
RO_0002162: 795797
locus tag: HACJB3_RS18575
old locus tag: HacjB3_19638
so part of: sequence
location: 3857..4156
location: region:3857-4156:1
so has part: feature:3857-4156:1:exon
subclass of: SO_0000010

9385831
type: Gene
SIO_000068: ncbigene

position:3857:1
position: 3857
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4156:1
position: 4156
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3857-4156:1:exon

HACJB3_RS18575
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 795797
locus tag: HACJB3_RS18575
old locus tag: HacjB3_19638
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: MSRDDREDLRRRIEELRDRAGERPDLIEALGIERAAEWWFDPDTQKRMIQSSLGGSQRPQAVVTTSEGEEYRADLIALWTGVVSSQDPDEIIEETEASG
SIO_010081: HACJB3_RS18575
subclass of: SO_0000673
so part of: HACJB3_RS18575
location: 3857..4156
location: region:3857-4156:1
so has part: feature:3857-4156:1:exon

WP_013199712.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3857-4156:1:exon

HACJB3_RS19895
type: Gene
subclass of: SO_0000704
RO_0002162: 795797
locus tag: HACJB3_RS19895
so part of: sequence
location: 4153..4401
location: region:4153-4401:1
so has part: feature:4153-4401:1:exon
subclass of: SO_0000010

41371885
type: Gene
SIO_000068: ncbigene

position:4153:1
position: 4153
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4401:1
position: 4401
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4153-4401:1:exon

HACJB3_RS19895
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 795797
locus tag: HACJB3_RS19895
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: MSQPRCPRGDDCVGDGHVSRDWRRVFGDRPCLDCSGAGWRIDKSDFGGIDDLRPADADGGLPSGRGRSDHDADADTPQWGAE
SIO_010081: HACJB3_RS19895
subclass of: SO_0000673
so part of: HACJB3_RS19895
location: 4153..4401
location: region:4153-4401:1
so has part: feature:4153-4401:1:exon

WP_148258292.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4153-4401:1:exon

HACJB3_RS19485
type: Gene
subclass of: SO_0000704
RO_0002162: 795797
locus tag: HACJB3_RS19485
so part of: sequence
location: 5217..5471
location: region:5217-5471:1
so has part: feature:5217-5471:1:exon
subclass of: SO_0000010

31807800
type: Gene
SIO_000068: ncbigene

position:5217:1
position: 5217
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5471:1
position: 5471
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5217-5471:1:exon

HACJB3_RS19485
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 795797
locus tag: HACJB3_RS19485
inference: COORDINATES: similar to AA sequence:RefSeq:WP_008415473.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MERERAENGRYAEQVTEERVLGVLGRGDGVTRPQSAKQVADKIGCTRQAVDRKLRELEKDGKVLKHELGSRSVAWTPRRMLRRG
SIO_010081: HACJB3_RS19485
subclass of: SO_0000673
so part of: HACJB3_RS19485
location: 5217..5471
location: region:5217-5471:1
so has part: feature:5217-5471:1:exon

WP_008419266.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5217-5471:1:exon

HACJB3_RS18585
type: Gene
subclass of: SO_0000704
RO_0002162: 795797
locus tag: HACJB3_RS18585
old locus tag: HacjB3_19648
so part of: sequence
location: 5584..5895
location: region:5584-5895:1
so has part: feature:5584-5895:1:exon
subclass of: SO_0000010

9385833
type: Gene
SIO_000068: ncbigene

position:5584:1
position: 5584
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5895:1
position: 5895
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5584-5895:1:exon

HACJB3_RS18585
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 795797
locus tag: HACJB3_RS18585
old locus tag: HacjB3_19648
inference: COORDINATES: similar to AA sequence:RefSeq:WP_008419265.1
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: ribbon-helix-helix protein, CopG family
translation: MQSITIKLSSETIDSLNSIAEAEHDGNRSDAVRELLSKGMDYDALEARHKEAQQQLRAVNARQEDVGELVEHVERERELQQRERERRDAPIWQRAKWWVLGRS
SIO_010081: HACJB3_RS18585
subclass of: SO_0000673
so part of: HACJB3_RS18585
location: 5584..5895
location: region:5584-5895:1
so has part: feature:5584-5895:1:exon

WP_008419265.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5584-5895:1:exon

HACJB3_RS20440
type: Gene
subclass of: SO_0000704
RO_0002162: 795797
locus tag: HACJB3_RS20440
old locus tag: HacjB3_19653
so part of: sequence
location: complement(5995..6138)
location: region:5995-6138:-1
so has part: feature:5995-6138:-1:exon
subclass of: SO_0000010

54763706
type: Gene
SIO_000068: ncbigene

position:5995:-1
position: 5995
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6138:-1
position: 6138
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5995-6138:-1:exon

HACJB3_RS20440
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 795797
locus tag: HACJB3_RS20440
old locus tag: HacjB3_19653
inference: COORDINATES: similar to AA sequence:RefSeq:WP_008419264.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MNVINNYAWFPGPMEREQYWLENIYYVVRIVYVVILIAGTLSVLGGV
SIO_010081: HACJB3_RS20440
subclass of: SO_0000673
so part of: HACJB3_RS20440
location: complement(5995..6138)
location: region:5995-6138:-1
so has part: feature:5995-6138:-1:exon

WP_008419264.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5995-6138:-1:exon