Maridesulfovibrio hydrothermalis AM13 = DSM 14728 plasmid DESAM_p, complete sequence.
type: Entry
definition: Maridesulfovibrio hydrothermalis AM13 = DSM 14728 plasmid DESAM_p, complete sequence.
sequence version: NC_019953.1
sequence date: 2023-05-03
sequence: sequence
division: CON
label: NC_019953.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMEA2272440
keyword: RefSeq
source: Maridesulfovibrio hydrothermalis AM13 = DSM 14728
organism: Maridesulfovibrio hydrothermalis AM13 = DSM 14728
taxonomy: Bacteria; Thermodesulfobacteriota; Desulfovibrionia; Desulfovibrionales; Desulfovibrionaceae; Maridesulfovibrio.
reference: 1
comment: REFSEQ INFORMATION: The reference sequence is identical to\nFO203523.1.\nAnnotation results relative to BLAST similarities, COG\nassignations, enzymatic function prediction (PRIAM software), TMHMM\nand SignalP predictions, and synteny conservation (Syntonizer\nsoftware) are available in the MicroScope annotation system\nhttp://www.genoscope.cns.fr/agc/microscope.\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 :: 05/03/2023 00:49:38\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) :: 3,331\nCDSs (total) :: 3,233\nGenes (coding) :: 3,207\nCDSs (with protein) :: 3,207\nGenes (RNA) :: 98\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 78\nncRNAs :: 5\nPseudo Genes (total) :: 26\nCDSs (without protein) :: 26\nPseudo Genes (ambiguous residues) :: 0 of 26\nPseudo Genes (frameshifted) :: 7 of 26\nPseudo Genes (incomplete) :: 19 of 26\nPseudo Genes (internal stop) :: 7 of 26\nPseudo Genes (multiple problems) :: 6 of 26\nCRISPR Arrays :: 6\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 5328
topology: circular
so has quality: SO_0000988
location: 1..5328
location: region:1-5328:1
RO_0002162: 1121451

NC_019953
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMEA2272440
type: BioSample
SIO_000068: biosample

1
title: Direct Submission
author: Genoscope -, C.E.A.
journal: Submitted (22-OCT-2012) Genoscope - CEA (Commissariat a l'energie atomique et aux energies alternatives) : BP 191 91006 EVRY cedex - FRANCE (E-mail : seqref@genoscope.cns.fr - Web : www.genoscope.cns.fr)

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

position:5328:1
position: 5328
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-5328:1:source
so part of: sequence
organism: Maridesulfovibrio hydrothermalis AM13 = DSM 14728
mol type: genomic DNA
strain: AM13 = DSM 14728
culture collection: DSM:14728
type material: type strain of Desulfovibrio hydrothermalis
plasmid: DESAM_p

1121451
type: Taxonomy
SIO_000068: taxonomy

DESAM_RS17050
type: Gene
subclass of: SO_0000704
RO_0002162: 1121451
locus tag: DESAM_RS17050
so part of: sequence
location: join(4908..5328,1..215)
location: region:1-5328:1
so has part: feature:4908-5328:1:exon
so has part: feature:1-215:1:exon
subclass of: SO_0000010

urn:…
SIO_000300: 1
SIO_000628: feature:4908-5328:1:exon

position:4908:1
position: 4908
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:1-215:1:exon

position:215:1
position: 215
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

DESAM_RS17050
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1121451
locus tag: DESAM_RS17050
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: MILIHDENVKVSRDVVEQYGEQAESVIVWNDASPEAALKKEAYFKKWDPHPAQLPSVFPSVTHPTLPVVCSVVDDPATDLQAAVVAFYNTHFAEYGSAGYGTTWAELVASEAISIEKAREAVTTAIKAEAQHRILSLWAVTTVEDSIVRQMNQQRADNVAGTTDERFTKTDAIRTASNNFEAALADMDKEAPAALVVREWDGWPITNNEFV
SIO_010081: DESAM_RS17050
subclass of: SO_0000673
so part of: DESAM_RS17050
location: join(4908..5328,1..215)
location: region:1-5328:1
so has part: feature:4908-5328:1:exon
so has part: feature:1-215:1:exon

WP_048831733.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4908-5328:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:1-215:1:exon

DESAM_RS16570
type: Gene
subclass of: SO_0000704
RO_0002162: 1121451
locus tag: DESAM_RS16570
old locus tag: DESAM_p0002
so part of: sequence
location: 229..792
location: region:229-792:1
so has part: feature:229-792:1:exon
subclass of: SO_0000010

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

position:792:1
position: 792
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:229-792:1:exon

DESAM_RS16570
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1121451
locus tag: DESAM_RS16570
old locus tag: DESAM_p0002
inference: COORDINATES: protein motif:HMM:NF016736.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: baseplate J/gp47 family protein
translation: MLYEVITEDDEEFRKRVQMAPEGFSVAGAAGGYVFHALSVEQVKDVVALSLIPGRVDIYILSRNDNGLPDADTLVAVKSAVNAETVRPLTDYVEVHAADLVAYEIEAEAWCQSGPASAAVLAEAYKNIQQLQLEKHAFGKTVPLSAIYAAIHVQGLEKVNLIKPVADLILEPHQVPYCTSIKLNGGR
SIO_010081: DESAM_RS16570
subclass of: SO_0000673
so part of: DESAM_RS16570
location: 229..792
location: region:229-792:1
so has part: feature:229-792:1:exon

WP_015294730.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:229-792:1:exon

DESAM_RS16670
type: Gene
subclass of: SO_0000704
RO_0002162: 1121451
locus tag: DESAM_RS16670
old locus tag: DESAM_p0003
so part of: sequence
location: 792..1838
location: region:792-1838:1
so has part: feature:792-1838:1:exon
subclass of: SO_0000010

position:1838:1
position: 1838
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:792-1838:1:exon

DESAM_RS16670
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1121451
locus tag: DESAM_RS16670
old locus tag: DESAM_p0003
inference: COORDINATES: protein motif:HMM:NF021220.2
GO component: GO:0044423 - virion component [Evidence IEA]
GO function: GO:0005198 - structural molecule activity [Evidence IEA]
GO process: GO:0016032 - viral process [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: phage tail protein I
translation: MADLLPISATKQERALSESMARIESVPIPIRKLWNPDTCPVELLPWLAWSLSVDWWDDEWPESVKREMVRSSIQIHRHKGTPWAVKKALEIVGLDDAEIIERSSLLQEYDKQGGLRLDGSWRCEPNQRLSPFERLTGSLWPYHWATFHVRLNIAQASKPGILETARKAVDMAKPLRSWPLWNVFLSMTGPSPNEAKSGASALTGSTIPQPANLRLDGSWTLGRDKAPARLKGQPLGFALGESIPGIVTKRLKNERLSTAIHGSKTLAINPGELDLRRDPLCRLSEKIMRLNGAWNVGTGLSLNGGWNLSGETRLVEAARLGKLPDYRLNGKLRLGISNPVCTTWPSVH
SIO_010081: DESAM_RS16670
subclass of: SO_0000673
so part of: DESAM_RS16670
location: 792..1838
location: region:792-1838:1
so has part: feature:792-1838:1:exon

WP_015294731.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:792-1838:1:exon

DESAM_RS16580
type: Gene
subclass of: SO_0000704
RO_0002162: 1121451
locus tag: DESAM_RS16580
old locus tag: DESAM_p0004
so part of: sequence
location: 1848..2228
location: region:1848-2228:1
so has part: feature:1848-2228:1:exon
subclass of: SO_0000010

position:1848:1
position: 1848
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2228:1
position: 2228
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1848-2228:1:exon

DESAM_RS16580
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1121451
locus tag: DESAM_RS16580
old locus tag: DESAM_p0004
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: MAVTASATNAYWKMLADELLAKLQQEDAIMKIGTGGWADNTPVAIDTAEADLHSPQLTKTLADVYKPDNYTVVATVRVVAGDMTTSASEAGLFVGEKLLFVRNFEPVPVQDMDYFDVKITIPFKVV
SIO_010081: DESAM_RS16580
subclass of: SO_0000673
so part of: DESAM_RS16580
location: 1848..2228
location: region:1848-2228:1
so has part: feature:1848-2228:1:exon

WP_015294732.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1848-2228:1:exon

DESAM_RS16585
type: Gene
subclass of: SO_0000704
RO_0002162: 1121451
locus tag: DESAM_RS16585
old locus tag: DESAM_p0005
so part of: sequence
location: 2241..4895
location: region:2241-4895:1
so has part: feature:2241-4895:1:exon
subclass of: SO_0000010

position:2241:1
position: 2241
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4895:1
position: 4895
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2241-4895:1:exon

DESAM_RS16585
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1121451
locus tag: DESAM_RS16585
old locus tag: DESAM_p0005
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: MADTILKPIGLIPETDETGQAPAATPALFNGPFGKTQNNFDALEPIVQDVIAAKGSASSLASKMETVESAIGNLETSDAVSVSKAVRLAWKRSDEGYAVEQFSPNMTLIEFDPISVTRTVQGDDSVDVESTKTLKVGNTYVISGNGRQESVTVAEILNATRFKADANLTHTLDAGKMGQTDWQIHAGYAIAPTGGVYYSSAMSVLRYYGNGMLDIRRDNNEGKLTVKVRTKGGGWQDAVLLETVEEESETRNEFYKLPVGGIVELQLVADKEIKVDYLMVYTSPEAGRAYPVAQPANLTPAHSAVSVVDPVTLTGTKPRSLYGIAIASVTVQIATDSNMQNIIHSATVDNPSGEFSYTTPSGTVEVEKNYFWDFYYTDEDGNTSPASKATGFSTASVFEYVVPPMVISPANGSADVMAPLTVRLSDFAAFGSADTHAASRIEASNTPDFSSILFDSGEVAPDADIRITEADGLAVSTDLYLRPYHKGTNLGWSAAGPTCKVRLADAFFLNYWGDGSDGDAVINNRVELPSVTNGDMVVKNYRNLTIEAGGVLTVANQCRGMLLYVSGDLTLNGSIEMDSKGCRCNPADAIVTSFTPLPASDGKGVGEGGLVFARTKRGNGESGSSDLSGCGLAAVAAEANQSTVSDGIMLTIARDNEAGKRGGDGGGPGGPGGFGGGAGGGAGRGGGSSASGVNTAGTGAGGSSADGGGAGTGTPPQSGGAGGCGGAGGLIIIFVKGSILIGNTGKIYFGSPNGGNNGGQGRGGAGGGRDSGNGGGNAGGKGGIDGGNGYAYGGGGGGAGSCFSGGSGGGASKYSLSTSWVGGISYDGGGGGGAGSNLLLAYAGNYTNHGSIENFGGQGGPSSHVSYVGSDGAAGVNLIVQIDV
SIO_010081: DESAM_RS16585
subclass of: SO_0000673
so part of: DESAM_RS16585
location: 2241..4895
location: region:2241-4895:1
so has part: feature:2241-4895:1:exon

WP_015294733.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2241-4895:1:exon