Marivirga tractuosa DSM 4126 plasmid pFTRAC01, complete sequence.
type: Entry
definition: Marivirga tractuosa DSM 4126 plasmid pFTRAC01, complete sequence.
sequence version: NC_014750.1
sequence date: 2022-10-06
sequence: sequence
division: CON
label: NC_014750.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN00138949
keyword: GSC:MIGS:2.1
keyword: RefSeq
source: Marivirga tractuosa DSM 4126
organism: Marivirga tractuosa DSM 4126
taxonomy: Bacteria; Bacteroidota; Cytophagia; Cytophagales; Marivirgaceae; Marivirga.
reference: 1
references: 21677852
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP002350.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4085041\nSource DNA and organism available from Hans-Peter Klenk at the\nGerman Collection of Microorganisms and Cell Cultures (DSMZ)\n(hans-peter.klenk@dsmz.de)\nContacts: Jonathan A. Eisen (jaeisen@ucdavis.edu)\n David Bruce (microbe@cuba.jgi-psf.org)\nWhole genome sequencing and draft assembly at JGI-PGF\nFinishing done by JGI-LANL\nAnnotation by JGI-ORNL and JGI-PGF\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. It is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\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##MIGS-Data-START##\ninvestigation_type :: bacteria_archaea\nproject_name :: Marivirga tractuosa Lewin H43, DSM 4126\ncollection_date :: Missing\nlat_lon :: 12.250 109.199\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Vietnam\nenvironment :: Missing\nnum_replicons :: 2\nref_biomaterial :: DSM 4126, ATCC 23168, IFO 15989, NBRC 15989,\n NCMB 1408\nbiotic_relationship :: Free living\ntrophic_level :: Missing\nrel_to_oxygen :: Missing\nisol_growth_condt :: 5360476\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi03940\nType Strain :: Yes\nGreengenes ID :: 58628\nFunding Program :: DOE-GEBA 2007\nGene Calling Method :: IMG/ER 2.8\nIsolation Site :: beach sand from Nha Trang\nIsolation Comments :: isolated by RA Lewin\nTemperature Range :: Mesophile\nTemperature Optimum :: 30C\nGram Staining :: Gram-\nDiseases :: None\n##MIGS-Data-END##…

sequence
subclass of: SO_0000155
sequence length: 4916
topology: circular
so has quality: SO_0000988
location: 1..4916
location: region:1-4916:1
RO_0002162: 643867

NC_014750
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN00138949
type: BioSample
SIO_000068: biosample

1
title: Complete genome sequence of Marivirga tractuosa type strain (H-43)
author: Pagani, I.
author: Chertkov, O.
author: Lapidus, A.
author: Lucas, S.
author: Del Rio, T.G.
author: Tice, H.
author: Copeland, A.
author: Cheng, J.F.
author: Nolan, M.
author: Saunders, E.
author: Pitluck, S.
author: Held, B.
author: Goodwin, L.
author: Liolios, K.
author: Ovchinikova, G.
author: Ivanova, N.
author: Mavromatis, K.
author: Pati, A.
author: Chen, A.
author: Palaniappan, K.
author: Land, M.
author: Hauser, L.
author: Jeffries, C.D.
author: Detter, J.C.
author: Han, C.
author: Tapia, R.
author: Ngatchou-Djao, O.D.
author: Rohde, M.
author: Goker, M.
author: Spring, S.
author: Sikorski, J.
author: Woyke, T.
author: Bristow, J.
author: Eisen, J.A.
author: Markowitz, V.
author: Hugenholtz, P.
author: Klenk, H.P.
author: Kyrpides, N.C.
journal: Stand Genomic Sci
volume: 4
issue: 2
pages: 154-162
year: 2011
pubmed: 21677852

21677852
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Lucas, S.
author: Copeland, A.
author: Lapidus, A.
author: Bruce, D.
author: Goodwin, L.
author: Pitluck, S.
author: Kyrpides, N.
author: Mavromatis, K.
author: Pagani, I.
author: Ivanova, N.
author: Ovchinnikova, G.
author: Chertkov, O.
author: Held, B.
author: Detter, J.C.
author: Han, C.
author: Tapia, R.
author: Land, M.
author: Hauser, L.
author: Markowitz, V.
author: Cheng, J.-F.
author: Hugenholtz, P.
author: Woyke, T.
author: Wu, D.
author: Spring, S.
author: Schroeder, M.
author: Schneider, S.
author: Klenk, H.-P.
author: Eisen, J.A.
journal: Submitted (18-NOV-2010) US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA

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

position:4916:1
position: 4916
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-4916:1:source
so part of: sequence
organism: Marivirga tractuosa DSM 4126
mol type: genomic DNA
strain: DSM 4126
isolation source: beach sand
type material: type strain of Marivirga tractuosa
plasmid: pFTRAC01
country: Viet Nam: Nha Trang
lat lon: 12.250 N 109.199 E
collected by: RA Lewin

643867
type: Taxonomy
SIO_000068: taxonomy

FTRAC_RS19735
type: Gene
subclass of: SO_0000704
RO_0002162: 643867
locus tag: FTRAC_RS19735
so part of: sequence
location: 97..432
location: region:97-432:1
so has part: feature:97-432:1:exon
subclass of: SO_0000010

position:97:1
position: 97
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:432:1
position: 432
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:97-432:1:exon

FTRAC_RS19735
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 643867
locus tag: FTRAC_RS19735
inference: COORDINATES: protein motif:HMM:NF017524.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: MobC family plasmid mobilization relaxosome protein
translation: MEKENNKGGRPRVAVQKKKRITLNCTSAEYRAIKSKAERSNLSLSDYCLRSAMAKPLPKVYSPERVDELRKLAGMANNLNQIAHSVNAGERLKLSSLQDLEQIRELLSKLK
SIO_010081: FTRAC_RS19735
subclass of: SO_0000673
so part of: FTRAC_RS19735
location: 97..432
location: region:97-432:1
so has part: feature:97-432:1:exon

WP_148230193.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:97-432:1:exon

FTRAC_RS18975
type: Gene
subclass of: SO_0000704
RO_0002162: 643867
locus tag: FTRAC_RS18975
old locus tag: Ftrac_3801
so part of: sequence
location: 429..1217
location: region:429-1217:1
so has part: feature:429-1217:1:exon
subclass of: SO_0000010

position:429:1
position: 429
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1217:1
position: 1217
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:429-1217:1:exon

FTRAC_RS18975
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 643867
locus tag: FTRAC_RS18975
old locus tag: Ftrac_3801
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: MIGKTGTGRSFGGLIEYLLDEKKEAEILAVDGVCDHDKKTAIEDFNMMRKQLPTLGKAVWHSSISFAEGDNMSNEEMKEIASEFMQEMGLENTQYMVVKHNDSKHQHLHIVANRVNYEGKAISDSHSKRKTVDRCEKIAKKHGLTNAKEQGNQRKEAIKKTIYQGIDQGKDLAGIMKGVEKLGYTVQYNQAKTGKISGVSYKMEDKGIIFKASEIDRNLSYTKLLRHIEEHKEREKTKQKQQDKSKNISTKRSIDQSKGMSR
SIO_010081: FTRAC_RS18975
subclass of: SO_0000673
so part of: FTRAC_RS18975
location: 429..1217
location: region:429-1217:1
so has part: feature:429-1217:1:exon

WP_148230194.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:429-1217:1:exon

FTRAC_RS18980
type: Gene
subclass of: SO_0000704
RO_0002162: 643867
locus tag: FTRAC_RS18980
old locus tag: Ftrac_3802
so part of: sequence
location: 1214..1807
location: region:1214-1807:1
so has part: feature:1214-1807:1:exon
subclass of: SO_0000010

position:1214:1
position: 1214
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1807:1
position: 1807
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1214-1807:1:exon

FTRAC_RS18980
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 643867
locus tag: FTRAC_RS18980
old locus tag: Ftrac_3802
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: MSNTIEIQLEAIADSLEKLEKQLKGKKEPKDHSADLETISRQIKALERLSIENANNAPEIDLSSLESKFEALNDKMDKLERSARHMQWLFPDLKATFWKFGVAVKLFLWIAVIGLGIGFYSYYQKADRYEESATKYYFYKYSAYTMSEIDSLYKTHADRINFIVDSTQEARAKRSEIEARKKQLEEEEKSLNQKQSN
SIO_010081: FTRAC_RS18980
subclass of: SO_0000673
so part of: FTRAC_RS18980
location: 1214..1807
location: region:1214-1807:1
so has part: feature:1214-1807:1:exon

WP_013447320.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1214-1807:1:exon

FTRAC_RS18985
type: Gene
subclass of: SO_0000704
RO_0002162: 643867
locus tag: FTRAC_RS18985
old locus tag: Ftrac_3803
so part of: sequence
location: 1816..2034
location: region:1816-2034:1
so has part: feature:1816-2034:1:exon
subclass of: SO_0000010

position:1816:1
position: 1816
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2034:1
position: 2034
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1816-2034:1:exon

FTRAC_RS18985
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 643867
locus tag: FTRAC_RS18985
old locus tag: Ftrac_3803
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: MQGTRTKERVSVELTLYEVWEHYRRLAYDYDQEPRWHSDDNTTLIESQKKALIAMKSLIEKELESDKFKEQK
SIO_010081: FTRAC_RS18985
subclass of: SO_0000673
so part of: FTRAC_RS18985
location: 1816..2034
location: region:1816-2034:1
so has part: feature:1816-2034:1:exon

WP_013447321.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1816-2034:1:exon

FTRAC_RS18990
type: Gene
subclass of: SO_0000704
RO_0002162: 643867
locus tag: FTRAC_RS18990
old locus tag: Ftrac_3804
so part of: sequence
location: complement(2043..2258)
location: region:2043-2258:-1
so has part: feature:2043-2258:-1:exon
subclass of: SO_0000010

position:2043:-1
position: 2043
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2258:-1
position: 2258
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2043-2258:-1:exon

FTRAC_RS18990
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 643867
locus tag: FTRAC_RS18990
old locus tag: Ftrac_3804
inference: COORDINATES: similar to AA sequence:RefSeq:WP_020256439.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: type II toxin-antitoxin system HicA family toxin
translation: MKAKDLIKELQKNGFELARSKGSHHIFKHSDGRRTTVPLHGGDMPTGTYKAIIKQSGIPDPEKQKGKKKGK
SIO_010081: FTRAC_RS18990
subclass of: SO_0000673
so part of: FTRAC_RS18990
location: complement(2043..2258)
location: region:2043-2258:-1
so has part: feature:2043-2258:-1:exon

WP_013447322.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2043-2258:-1:exon

FTRAC_RS18995
type: Gene
subclass of: SO_0000704
RO_0002162: 643867
locus tag: FTRAC_RS18995
old locus tag: Ftrac_3805
so part of: sequence
location: complement(2324..2542)
location: region:2324-2542:-1
so has part: feature:2324-2542:-1:exon
subclass of: SO_0000010

position:2324:-1
position: 2324
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2542:-1
position: 2542
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2324-2542:-1:exon

FTRAC_RS18995
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 643867
locus tag: FTRAC_RS18995
old locus tag: Ftrac_3805
inference: COORDINATES: similar to AA sequence:RefSeq:WP_020607553.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: type II toxin-antitoxin system HicB family antitoxin
translation: MQTFRIVLHPEIEGGYTVTVPSLSGCITWGKDVQEARAMAKEAIELYLEDLQASGEPIPDDSQSLELSLTVA
SIO_010081: FTRAC_RS18995
subclass of: SO_0000673
so part of: FTRAC_RS18995
location: complement(2324..2542)
location: region:2324-2542:-1
so has part: feature:2324-2542:-1:exon

WP_013447323.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2324-2542:-1:exon

FTRAC_RS19005
type: Gene
subclass of: SO_0000704
RO_0002162: 643867
locus tag: FTRAC_RS19005
old locus tag: Ftrac_3807
so part of: sequence
location: complement(2762..3070)
location: region:2762-3070:-1
so has part: feature:2762-3070:-1:exon
subclass of: SO_0000010

position:2762:-1
position: 2762
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3070:-1
position: 3070
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2762-3070:-1:exon

FTRAC_RS19005
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 643867
locus tag: FTRAC_RS19005
old locus tag: Ftrac_3807
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: MTEKKRKELEALSFQDLEYLSEKGLKIWDRLTDAYTHIGLISSDPGSSNPETDYYFAMHQDADNILREKVEKIFGEVPRTEKTIYESQKLWDYLDEKDKREK
SIO_010081: FTRAC_RS19005
subclass of: SO_0000673
so part of: FTRAC_RS19005
location: complement(2762..3070)
location: region:2762-3070:-1
so has part: feature:2762-3070:-1:exon

WP_013447325.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2762-3070:-1:exon

FTRAC_RS19010
type: Gene
subclass of: SO_0000704
RO_0002162: 643867
locus tag: FTRAC_RS19010
old locus tag: Ftrac_3808
so part of: sequence
location: complement(3078..4136)
location: region:3078-4136:-1
so has part: feature:3078-4136:-1:exon
subclass of: SO_0000010

position:3078:-1
position: 3078
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4136:-1
position: 4136
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3078-4136:-1:exon

FTRAC_RS19010
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 643867
locus tag: FTRAC_RS19010
old locus tag: Ftrac_3808
inference: COORDINATES: protein motif:HMM:NF013235.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication initiation protein
translation: MAHKDKRSPQISIPMEYPEKELKEIAKQHWNITFAKQKKVSVVAKRIMDNVLGQIHDNDLTLKPFYQMHVSEVVNYSDSGSAYDITRKAFTDLASTSWLIQDLEKKYFAPRHLLDTTKTEVKDGFETAYKDGMITIAINPVLEPYFVQVAHYTRYERGQLKNFTSWYSVRIWEILSGFEDILQKGEKWYVSLEELRGWMDCEKKYKNNTKDLLYNIFKEPLIELKGTKLEFDYDKVYAKGVKGRPPIIGLEFYLVNPQGLKPASKILEEWIEKTPEQDREKKRRCIEKGREWKISDENLVKCLPIIKEAGAWKLYKQFSEKDNARGTEKKIQDKKAFCNSAMLIAAGLKKPK
SIO_010081: FTRAC_RS19010
subclass of: SO_0000673
so part of: FTRAC_RS19010
location: complement(3078..4136)
location: region:3078-4136:-1
so has part: feature:3078-4136:-1:exon

WP_013447326.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3078-4136:-1:exon