Rahnella aquatilis CIP 78.65 = ATCC 33071 plasmid pRahaq203, complete sequence.
type: Entry
definition: Rahnella aquatilis CIP 78.65 = ATCC 33071 plasmid pRahaq203, complete sequence.
sequence version: NC_017092.1
sequence date: 2023-02-22
sequence: sequence
division: CON
label: NC_017092.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN02261385
keyword: GSC:MIGS:2.1
keyword: RefSeq
source: Rahnella aquatilis CIP 78.65 = ATCC 33071
organism: Rahnella aquatilis CIP 78.65 = ATCC 33071
taxonomy: Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Yersiniaceae; Rahnella.
reference: 1
references: 22582378
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP003247.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4089211\nSource DNA and organism available from Robert Martinez\n(rmartinez@bama.ua.edu)\nContacts: Robert Martinez (rmartinez@bama.ua.edu)\n Tanja Woyke (microbe@cuba.jgi-psf.org)\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-LANL\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 :: Rahnella aquatilis CIP 78.65\ncollection_date :: Missing\nlat_lon :: Missing\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Missing\nenvironment :: Host\nnum_replicons :: 4\nref_biomaterial :: Missing\nbiotic_relationship :: Missing\ntrophic_level :: Missing\nrel_to_oxygen :: Facultative\nisol_growth_condt :: Missing\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release)\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi06369\nType Strain :: Yes\nFunding Program :: DOE-CSP 2010\nGene Calling Method :: Prodigal 1.4, GenePRIMP\nIsolation Site :: drinking water\nHost Name :: Water, humans\nCell Shape :: Rod-shaped\nTemperature Range :: Mesophile\nGram Staining :: Gram-\n##MIGS-Data-END##\n\n##Genome-Assembly-Data-START##\nFinishing Goal :: Finished\nCurrent Finishing Status :: Finished\nAssembly Method :: Newbler v. 2.3\nGenome Coverage :: 30x\nSequencing Technology :: 454/Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-…

sequence
subclass of: SO_0000155
sequence length: 8406
topology: linear
so has quality: SO_0000987
location: 1..8406
location: region:1-8406:1
RO_0002162: 745277

NC_017092
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN02261385
type: BioSample
SIO_000068: biosample

1
title: Complete genome sequence of Rahnella aquatilis CIP 78.65
author: Martinez, R.J.
author: Bruce, D.
author: Detter, C.
author: Goodwin, L.A.
author: Han, J.
author: Han, C.S.
author: Held, B.
author: Land, M.L.
author: Mikhailova, N.
author: Nolan, M.
author: Pennacchio, L.
author: Pitluck, S.
author: Tapia, R.
author: Woyke, T.
author: Sobecky, P.A.
journal: J Bacteriol
volume: 194
issue: 11
pages: 3020-3021
year: 2012
pubmed: 22582378

22582378
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Lucas, S.
author: Han, J.
author: Lapidus, A.
author: Cheng, J.-F.
author: Goodwin, L.
author: Pitluck, S.
author: Peters, L.
author: Ovchinnikova, G.
author: Held, B.
author: Detter, J.C.
author: Han, C.
author: Tapia, R.
author: Land, M.
author: Hauser, L.
author: Kyrpides, N.
author: Ivanova, N.
author: Pagani, I.
author: Sobecky, P.
author: Martinez, R.
author: Woyke, T.
journal: Submitted (04-JAN-2012) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA

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

position:8406:1
position: 8406
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-8406:1:source
so part of: sequence
organism: Rahnella aquatilis CIP 78.65 = ATCC 33071
mol type: genomic DNA
strain: CIP 78.65
isolation source: drinking water
culture collection: ATCC:33071
type material: type strain of Rahnella aquatilis
plasmid: pRahaq203

745277
type: Taxonomy
SIO_000068: taxonomy

RAHAQ2_RS24585
type: Gene
subclass of: SO_0000704
RO_0002162: 745277
locus tag: RAHAQ2_RS24585
old locus tag: Rahaq2_5114
so part of: sequence
location: 167..598
location: region:167-598:1
so has part: feature:167-598:1:exon
subclass of: SO_0000010

61514987
type: Gene
SIO_000068: ncbigene

position:167:1
position: 167
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:598:1
position: 598
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:167-598:1:exon

RAHAQ2_RS24585
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 745277
locus tag: RAHAQ2_RS24585
old locus tag: Rahaq2_5114
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011148236.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF29 domain-containing protein
translation: MTARYETDFYGWTREQADLLRNGRFSELDTQNLLEEIEAMGTSAETELESRLEVLFIHMLKCQLLSEHQARSWKLTIEEQRRKIERSLRKSPSIRHKLPEIIGDAYGDAVIGAERETHIKRSVFPAECPWSFEQFMDPKFYPE
SIO_010081: RAHAQ2_RS24585
subclass of: SO_0000673
so part of: RAHAQ2_RS24585
location: 167..598
location: region:167-598:1
so has part: feature:167-598:1:exon

WP_014440113.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:167-598:1:exon

RAHAQ2_RS24590
type: Gene
subclass of: SO_0000704
RO_0002162: 745277
locus tag: RAHAQ2_RS24590
old locus tag: Rahaq2_5115
so part of: sequence
location: complement(1524..1934)
location: region:1524-1934:-1
so has part: feature:1524-1934:-1:exon
subclass of: SO_0000010

61514988
type: Gene
SIO_000068: ncbigene

position:1524:-1
position: 1524
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1934:-1
position: 1934
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1524-1934:-1:exon

RAHAQ2_RS24590
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 745277
locus tag: RAHAQ2_RS24590
old locus tag: Rahaq2_5115
inference: COORDINATES: similar to AA sequence:RefSeq:WP_019725133.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DNA-binding protein
translation: MAKISISEASRLTGKSRTTLHRLIKAGELSSCSGMKNTKLLDTSELLRVFGTLSSVQPAQLDGQVTGQRFTSETAQSEQVHQQLTQEVEHLRELVTAQQSHIDSLKQAMLLLEHKKEIQPVAAASDNSPWWRFWKS
SIO_010081: RAHAQ2_RS24590
subclass of: SO_0000673
so part of: RAHAQ2_RS24590
location: complement(1524..1934)
location: region:1524-1934:-1
so has part: feature:1524-1934:-1:exon

WP_014440114.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1524-1934:-1:exon

RAHAQ2_RS24595
type: Gene
subclass of: SO_0000704
RO_0002162: 745277
locus tag: RAHAQ2_RS24595
old locus tag: Rahaq2_5116
so part of: sequence
location: complement(4109..4813)
location: region:4109-4813:-1
so has part: feature:4109-4813:-1:exon
subclass of: SO_0000010

61514989
type: Gene
SIO_000068: ncbigene

position:4109:-1
position: 4109
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4813:-1
position: 4813
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4109-4813:-1:exon

RAHAQ2_RS24595
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 745277
locus tag: RAHAQ2_RS24595
old locus tag: Rahaq2_5116
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: serine/threonine protein phosphatase
translation: MTVRMDFITSTGTRDRNLDRFLEVKTDFLSVFIMLDGFSQTDANPHYVDSLIDEMRDKILSGMGFEDVISVMENIQSSSVKCSGKSSIGVVLISDTEVKTMTVGDVRIYFLIDGKRSLDDSLAQFLVSSGVSNPHFLNKHPYRNRLTKYLSKDSIHPIPAFSSKRIINGEAIFMCTDGFWSNFEDREILEVTLDGKLTTMFNDVMHSNDENIDNASVALLRFNLADEEQQLALA
SIO_010081: RAHAQ2_RS24595
subclass of: SO_0000673
so part of: RAHAQ2_RS24595
location: complement(4109..4813)
location: region:4109-4813:-1
so has part: feature:4109-4813:-1:exon

WP_014440115.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4109-4813:-1:exon

RAHAQ2_RS24600
type: Gene
subclass of: SO_0000704
RO_0002162: 745277
locus tag: RAHAQ2_RS24600
old locus tag: Rahaq2_5117
so part of: sequence
location: complement(4823..5692)
location: region:4823-5692:-1
so has part: feature:4823-5692:-1:exon
subclass of: SO_0000010

61514990
type: Gene
SIO_000068: ncbigene

position:4823:-1
position: 4823
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5692:-1
position: 5692
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4823-5692:-1:exon

RAHAQ2_RS24600
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 745277
locus tag: RAHAQ2_RS24600
old locus tag: Rahaq2_5117
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011145400.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: nucleotidyl transferase AbiEii/AbiGii toxin family protein
translation: MEFSIEEWVSLSPADRVVFRQSVHIVLSAIANSEYLKPKMIMKGGMLLGIRYKSSRFTEDIDFSTKMKLSEIDQEEFRKELDDALVISSDELAYGVSCKVQSLVIQPKKGYDKATFPSFNLTIGYARKNSAGEMDRLSRGQCPNTIKIDYSFNELSYSIDNIVMDDGSGVSAYGVTDLVAEKIRSIIQQPYRNRSRRQDVYDLDFIFDSICFDDGEKLTILHSLLDKSTGRIPDGHITKDTLDREDIRDLSRRNYDTLHLEVEGDVKDFDFSFDRINEFYKSLPWDAVA
SIO_010081: RAHAQ2_RS24600
subclass of: SO_0000673
so part of: RAHAQ2_RS24600
location: complement(4823..5692)
location: region:4823-5692:-1
so has part: feature:4823-5692:-1:exon

WP_014440116.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4823-5692:-1:exon

RAHAQ2_RS26095
type: Gene
subclass of: SO_0000704
RO_0002162: 745277
locus tag: RAHAQ2_RS26095
so part of: sequence
location: complement(5705..6058)
location: region:5705-6058:-1
so has part: feature:5705-6058:-1:exon
subclass of: SO_0000010

70692635
type: Gene
SIO_000068: ncbigene

position:5705:-1
position: 5705
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6058:-1
position: 6058
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5705-6058:-1:exon

RAHAQ2_RS26095
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 745277
locus tag: RAHAQ2_RS26095
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: MKKEQYGSGGVRVTNIGETFLDMLKEPDLCGGFEHVFSVFENYHEKFLPVILKEISKNGNSMDKARAGYILEEVIGIKNKVIESWKDDVKRGGSRKLIPSNPYKNVFSETWCISINN
SIO_010081: RAHAQ2_RS26095
subclass of: SO_0000673
so part of: RAHAQ2_RS26095
location: complement(5705..6058)
location: region:5705-6058:-1
so has part: feature:5705-6058:-1:exon

WP_238532113.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5705-6058:-1:exon

RAHAQ2_RS26100
type: Gene
subclass of: SO_0000704
RO_0002162: 745277
locus tag: RAHAQ2_RS26100
so part of: sequence
location: complement(6180..6602)
location: region:6180-6602:-1
so has part: feature:6180-6602:-1:exon
subclass of: SO_0000010

70692636
type: Gene
SIO_000068: ncbigene

position:6180:-1
position: 6180
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6602:-1
position: 6602
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6180-6602:-1:exon

RAHAQ2_RS26100
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 745277
locus tag: RAHAQ2_RS26100
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: MIKETISLREALKTIILERHAKPVINAYEIAWYLYELYRDKNFEGVRLGKISAKEPDFRVIADVQHFLLSRGLISKCIDNTIYSINNRNPPTAQQVVCCMSPCSYISHISAMEWHGITDRIPKILHITQSSSRFLKDFFF
SIO_010081: RAHAQ2_RS26100
subclass of: SO_0000673
so part of: RAHAQ2_RS26100
location: complement(6180..6602)
location: region:6180-6602:-1
so has part: feature:6180-6602:-1:exon

WP_238532114.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6180-6602:-1:exon

RAHAQ2_RS25410
type: Gene
subclass of: SO_0000704
RO_0002162: 745277
locus tag: RAHAQ2_RS25410
so part of: sequence
location: 7127..7282
location: region:7127-7282:1
so has part: feature:7127-7282:1:exon
subclass of: SO_0000010

61515094
type: Gene
SIO_000068: ncbigene

position:7127:1
position: 7127
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7282:1
position: 7282
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7127-7282:1:exon

RAHAQ2_RS25410
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 745277
locus tag: RAHAQ2_RS25410
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010251985.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF1508 domain-containing protein
translation: MNDKWEFYTDTANEWRWRRTASNGRIVGASSQGYVNRSDCVENARRNGYTG
SIO_010081: RAHAQ2_RS25410
subclass of: SO_0000673
so part of: RAHAQ2_RS25410
location: 7127..7282
location: region:7127-7282:1
so has part: feature:7127-7282:1:exon

WP_072010247.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7127-7282:1:exon

RAHAQ2_RS26105
type: Gene
subclass of: SO_0000704
RO_0002162: 745277
locus tag: RAHAQ2_RS26105
so part of: sequence
location: complement(7307..7516)
location: region:7307-7516:-1
so has part: feature:7307-7516:-1:exon
subclass of: SO_0000010

70692637
type: Gene
SIO_000068: ncbigene

position:7307:-1
position: 7307
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:7516:-1
position: 7516
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7307-7516:-1:exon

RAHAQ2_RS26105
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 745277
locus tag: RAHAQ2_RS26105
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: MVNTTNRQVQKKKAPQGFERPTYFSEDLLGFNLSVFPGVFLLSRWRLSGSPVDSAMRFGPGLRLMMIIL
SIO_010081: RAHAQ2_RS26105
subclass of: SO_0000673
so part of: RAHAQ2_RS26105
location: complement(7307..7516)
location: region:7307-7516:-1
so has part: feature:7307-7516:-1:exon

WP_238532115.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7307-7516:-1:exon

RAHAQ2_RS24615
type: Gene
subclass of: SO_0000704
RO_0002162: 745277
locus tag: RAHAQ2_RS24615
old locus tag: Rahaq2_5120
so part of: sequence
location: 7684..7905
location: region:7684-7905:1
so has part: feature:7684-7905:1:exon
subclass of: SO_0000010

61514991
type: Gene
SIO_000068: ncbigene

position:7684:1
position: 7684
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7905:1
position: 7905
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7684-7905:1:exon

RAHAQ2_RS24615
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 745277
locus tag: RAHAQ2_RS24615
old locus tag: Rahaq2_5120
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000849090.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF1471 domain-containing protein
translation: MKTIKTLVVAAALATVSFGSFAAEIGTVTATGNTLDGLESTFAAKAAAAGATSYKIIEASGQNHLHGTAILYK
SIO_010081: RAHAQ2_RS24615
subclass of: SO_0000673
so part of: RAHAQ2_RS24615
location: 7684..7905
location: region:7684-7905:1
so has part: feature:7684-7905:1:exon

WP_014440119.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7684-7905:1:exon