Candidatus Hoaglandella endobia isolate HETPER plasmid III, complete sequence.
type: Entry
definition: Candidatus Hoaglandella endobia isolate HETPER plasmid III, complete sequence.
sequence version: NZ_LN999837.1
sequence date: 2022-12-24
sequence: sequence
division: CON
label: NZ_LN999837.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMEA3725908
keyword: RefSeq
source: Candidatus Hoaglandella endobia
organism: Candidatus Hoaglandella endobia
taxonomy: Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Candidatus Hoaglandella.
reference: 1
comment: REFSEQ INFORMATION: The reference sequence is identical to\nLN999837.1.\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 :: 12/24/2022 02:57:43\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 579\nCDSs (total) :: 532\nGenes (coding) :: 504\nCDSs (with protein) :: 504\nGenes (RNA) :: 47\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 41\nncRNAs :: 3\nPseudo Genes (total) :: 28\nCDSs (without protein) :: 28\nPseudo Genes (ambiguous residues) :: 0 of 28\nPseudo Genes (frameshifted) :: 14 of 28\nPseudo Genes (incomplete) :: 23 of 28\nPseudo Genes (internal stop) :: 4 of 28\nPseudo Genes (multiple problems) :: 11 of 28\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 5248
topology: circular
so has quality: SO_0000988
location: 1..5248
location: region:1-5248:1
RO_0002162: 1778263

NZ_LN999837
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMEA3725908
type: BioSample
SIO_000068: biosample

1
title: Direct Submission
author: Husnik, Filip.
journal: Submitted (18-JAN-2016) UNIVERSITY OF SOUTH BOHEMIA, Branisovska 31, Czech Republic

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

position:5248:1
position: 5248
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-5248:1:source
so part of: sequence
organism: Candidatus Hoaglandella endobia
mol type: genomic DNA
isolate: HETPER
plasmid: III

1778263
type: Taxonomy
SIO_000068: taxonomy

A4A70_RS02820
type: Gene
subclass of: SO_0000704
RO_0002162: 1778263
gene: repA
locus tag: A4A70_RS02820
old locus tag: TPER_HE00001
so part of: sequence
location: 203..1096
location: region:203-1096:1
so has part: feature:203-1096:1:exon
subclass of: SO_0000010

position:203:1
position: 203
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1096:1
position: 1096
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:203-1096:1:exon

A4A70_RS02820
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1778263
gene: repA
locus tag: A4A70_RS02820
old locus tag: TPER_HE00001
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011412274.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: plasmid replication initiator RepA
translation: MDKKTSISSAQIVAPAFLSRSYVNNPHPCYQPPKADMKPPRIIDAMRKSARENPPSKHPLWRTAPRFHAITHGLLWTERAMNLHRRRAVDAIMECLAAHVNLVTSKVFMTLGQISDACGLTTYNRHGQPCYSRASRAINEHIEAIGAVHCERVWDETSGSYIPNIIWVTELFFVLIGYEYGKYLAAQQQQLAWENHKRRETGEGPISLTEARRRAKTQHIKRAFEMRTQKQAHRKQVRRALKLAALDKQEAQNAILKDLVKLYSKDELVAMEHVQLKRLVEQRYHVMRKLATAPPPS
SIO_010081: A4A70_RS02820
subclass of: SO_0000673
so part of: A4A70_RS02820
location: 203..1096
location: region:203-1096:1
so has part: feature:203-1096:1:exon

WP_231908303.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:203-1096:1:exon

A4A70_RS02825
type: Gene
subclass of: SO_0000704
RO_0002162: 1778263
locus tag: A4A70_RS02825
old locus tag: TPER_HE00002
so part of: sequence
location: complement(1646..2194)
location: region:1646-2194:-1
so has part: feature:1646-2194:-1:exon
subclass of: SO_0000010

position:1646:-1
position: 1646
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2194:-1
position: 2194
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1646-2194:-1:exon

A4A70_RS02825
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1778263
locus tag: A4A70_RS02825
old locus tag: TPER_HE00002
inference: COORDINATES: protein motif:HMM:NF022241.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: plasmid partitioning/stability family protein
translation: MNKTKKYYFYLNIDKDEQAAAIKLLDHLGQGKKSAAIKSVLLSGFSLKQIDERLPLLVASLIAKPTSLSTLAKVIGVLSPDYNISQITNEKAKEIVAWQKRVRDQLLPNNGWSAWISITESEYASLITKNDTDIQVRALIGAINGDLINESAHKKAVLAEKTSIASSHTNTVISKANKLFNT
SIO_010081: A4A70_RS02825
subclass of: SO_0000673
so part of: A4A70_RS02825
location: complement(1646..2194)
location: region:1646-2194:-1
so has part: feature:1646-2194:-1:exon

WP_067568337.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1646-2194:-1:exon

A4A70_RS02830
type: Gene
subclass of: SO_0000704
RO_0002162: 1778263
gene: parM
locus tag: A4A70_RS02830
old locus tag: TPER_HE00003
so part of: sequence
location: complement(2191..3186)
location: region:2191-3186:-1
so has part: feature:2191-3186:-1:exon
subclass of: SO_0000010

position:2191:-1
position: 2191
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3186:-1
position: 3186
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2191-3186:-1:exon

A4A70_RS02830
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1778263
gene: parM
locus tag: A4A70_RS02830
old locus tag: TPER_HE00003
inference: COORDINATES: similar to AA sequence:RefSeq:WP_001760566.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: plasmid segregation protein ParM
translation: MIKVFCDDGSTAIKLCWYDKQHHEPKTLISQNTFTEGWKPVGFASDPIYNYEVDGLKYSFSKASAEVIPTTNIDFQYRTENLLSVHHALQLSGITPQEIELWVTLPISEYYTNHDAQENTFNIQRKISNLQRSISLNKRQVFTFGKIRVYPESVPAVVSALQIDNVHPLEQSLVVDLGGTTLDCGVIEGQFDSIAKISSDAGTGVSLVIRHVQDALLKADTLSNYYVADTIIREMMAGNDVNIFPLINNVEYIATVKTAFEISRNRLIEKVIQHVEQNYRGFHRIYLTGGGAEYLYTAFNAHWSTFKTKIKKLETPQLALVKALAEIGKHQ
SIO_010081: A4A70_RS02830
subclass of: SO_0000673
so part of: A4A70_RS02830
location: complement(2191..3186)
location: region:2191-3186:-1
so has part: feature:2191-3186:-1:exon

WP_067568339.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2191-3186:-1:exon

A4A70_RS02835
type: Gene
subclass of: SO_0000704
RO_0002162: 1778263
locus tag: A4A70_RS02835
old locus tag: TPER_HE00004
so part of: sequence
location: 3549..4046
location: region:3549-4046:1
so has part: feature:3549-4046:1:exon
subclass of: SO_0000010

position:3549:1
position: 3549
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4046:1
position: 4046
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3549-4046:1:exon

A4A70_RS02835
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1778263
locus tag: A4A70_RS02835
old locus tag: TPER_HE00004
inference: COORDINATES: similar to AA sequence:RefSeq:WP_015873678.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: Hsp20 family protein
translation: MAYRSFSLIPTLSNNLLSDRFTQMDNLFSRLTGEKPLGETPAYNLLQKDKEHYEMTVSVPGYKQDELDISVLNNQLTISGKPKVEETDATEEKDGIKWLHQGIMRRSDFSLSFSLEHRITIHQANLEKGLLTLKFTYDIPEKEKPQKIAIGGQNESGRVLEHNAA
SIO_010081: A4A70_RS02835
subclass of: SO_0000673
so part of: A4A70_RS02835
location: 3549..4046
location: region:3549-4046:1
so has part: feature:3549-4046:1:exon

WP_067568341.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3549-4046:1:exon

A4A70_RS02840
type: Gene
subclass of: SO_0000704
RO_0002162: 1778263
gene: mscS
locus tag: A4A70_RS02840
old locus tag: TPER_HE00005
so part of: sequence
location: complement(4245..5117)
location: region:4245-5117:-1
so has part: feature:4245-5117:-1:exon
subclass of: SO_0000010

position:4245:-1
position: 4245
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5117:-1
position: 5117
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4245-5117:-1:exon

A4A70_RS02840
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1778263
gene: mscS
locus tag: A4A70_RS02840
old locus tag: TPER_HE00005
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017893892.1
GO component: GO:0016020 - membrane [Evidence IEA]
GO process: GO:0055085 - transmembrane transport [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: small-conductance mechanosensitive channel MscS
translation: MEDLNVNVVDGINGAGTWLVKNQGLFIQYAVNIVTAIVILLIGSIVARMIGNALNRVIKLRGIDATVADFLSAIVRYVLRAFTLIAVLGSLGVQTSSVIAVLGAAGLAVALSLQGSLSNFAAGVLLVIFRPLRLGEYVDLCGVIGIVDQVHIFTTTLRTPDNKTIVVPNGKIIAGNIINYSREPNRRVDIEIGVAYHADIDMVKKVLGDVIAADKRIIHEKGVTVRLKDMAPSSLNFITRSWTANAEYWNVYFDLMENFKRALDANKIGMPFPQMDVHLYQPDDLSNKAE
SIO_010081: A4A70_RS02840
subclass of: SO_0000673
so part of: A4A70_RS02840
location: complement(4245..5117)
location: region:4245-5117:-1
so has part: feature:4245-5117:-1:exon

WP_067568343.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4245-5117:-1:exon