Blattabacterium clevelandi strain CCLhc plasmid pCCLhc, complete sequence.
type: Entry
definition: Blattabacterium clevelandi strain CCLhc plasmid pCCLhc, complete sequence.
sequence version: NZ_CP029845.1
sequence date: 2022-10-06
sequence: sequence
division: CON
label: NZ_CP029845.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN09370566
keyword: RefSeq
source: Blattabacterium clevelandi
organism: Blattabacterium clevelandi
taxonomy: Bacteria; Bacteroidota; Flavobacteriia; Flavobacteriales; Blattabacteriaceae; Blattabacterium.
reference: 1
references: 29860278
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP029845.1.\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-Assembly-Data-START##\nAssembly Method :: SPAdes v. 3.1\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 60.0x\nSequencing Technology :: Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/05/2022 18:56:57\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 601\nCDSs (total) :: 564\nGenes (coding) :: 558\nCDSs (with protein) :: 558\nGenes (RNA) :: 37\nrRNAs :: 1, 1, 1 (5S, 16S, 23S)\ncomplete rRNAs :: 1, 1, 1 (5S, 16S, 23S)\ntRNAs :: 32\nncRNAs :: 2\nPseudo Genes (total) :: 6\nCDSs (without protein) :: 6\nPseudo Genes (ambiguous residues) :: 0 of 6\nPseudo Genes (frameshifted) :: 6 of 6\nPseudo Genes (incomplete) :: 0 of 6\nPseudo Genes (internal stop) :: 2 of 6\nPseudo Genes (multiple problems) :: 2 of 6\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 3349
topology: circular
so has quality: SO_0000988
location: 1..3349
location: region:1-3349:1
RO_0002162: 164516

NZ_CP029845
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN09370566
type: BioSample
SIO_000068: biosample

1
title: Parallel and Gradual Genome Erosion in the Blattabacterium Endosymbionts of Mastotermes darwiniensis and Cryptocercus Wood Roaches
author: Kinjo, Y.
author: Bourguignon, T.
author: Tong, K.J.
author: Kuwahara, H.
author: Lim, S.J.
author: Yoon, K.B.
author: Shigenobu, S.
author: Park, Y.C.
author: Nalepa, C.A.
author: Hongoh, Y.
author: Ohkuma, M.
author: Lo, N.
author: Tokuda, G.
journal: Genome Biol Evol
volume: 10
issue: 6
pages: 1622-1630
year: 2018
pubmed: 29860278

29860278
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Kinjo, Y.
journal: Submitted (08-JUN-2018) Evolutionary Genomics Unit, Okinawa Institute of Science and Technology, 1919-1, Tancha, Onna, Okinawa 9040495, Japan

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

position:3349:1
position: 3349
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-3349:1:source
so part of: sequence
organism: Blattabacterium clevelandi
mol type: genomic DNA
strain: CCLhc
host: Cryptocercus clevelandi
plasmid: pCCLhc
country: USA:CA
collection date: 2016

164516
type: Taxonomy
SIO_000068: taxonomy

DM817_RS03000
type: Gene
subclass of: SO_0000704
RO_0002162: 164516
locus tag: DM817_RS03000
so part of: sequence
location: 547..1620
location: region:547-1620:1
so has part: feature:547-1620:1:exon
subclass of: SO_0000010

position:547:1
position: 547
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1620:1
position: 1620
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:547-1620:1:exon

DM817_RS03000
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 164516
locus tag: DM817_RS03000
EC number: 1.17.4.1
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014726905.1
GO function: GO:0016491 - oxidoreductase activity [Evidence IEA]
GO process: GO:0009263 - deoxyribonucleotide biosynthetic process [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ribonucleotide-diphosphate reductase subunit beta
translation: MGITKDRLNFKPFEYQWAYEYWFKQQNAHWLHTEINMQSDIHDWNENLSDREKNVIGDILKGFTQTETEVGNYWSEMIPKWFPIPEIKMMGQAFGSFETIHAVAYSYLNDILGLDNFHAFLEDEATMKKLKVLMDIRKSDHGKYNRKEIAKSIALFSAAAEGIQLFSSFAVLLSFRKSNRLKGIGQQIIFSVRDESLHSEAGCKIFRTFCEENDGLKNSVADSIYYGMDLALKNEFIFIDQIFDNGDIPTIKREELKNFMKDRANLKLKELGLSDAYCIDKNMLDNMSWFYITISGEQQTDFFDNRETGYSKPNEDWNEDLFVLDEKKTSTEKKILEILLKNQKENLGNSGCVSCES
SIO_010081: DM817_RS03000
subclass of: SO_0000673
so part of: DM817_RS03000
location: 547..1620
location: region:547-1620:1
so has part: feature:547-1620:1:exon

WP_113738587.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:547-1620:1:exon

DM817_RS03005
type: Gene
subclass of: SO_0000704
RO_0002162: 164516
locus tag: DM817_RS03005
so part of: sequence
location: 1650..2030
location: region:1650-2030:1
so has part: feature:1650-2030:1:exon
subclass of: SO_0000010

position:1650:1
position: 1650
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2030:1
position: 2030
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1650-2030:1:exon

DM817_RS03005
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 164516
locus tag: DM817_RS03005
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014726904.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: VRR-NUC domain-containing protein
translation: MKRKITPWYNTLGKEQLLHSSVCDYLDYEYPHIFYFHPHNEARRTPYERFLIKVMRLRPGLPDILVPIPKKGSTGMALEFKIKPNKLTENQIHIIDIFNSYNWKVNVCYDFDEAKIYIDQYLKKTD
SIO_010081: DM817_RS03005
subclass of: SO_0000673
so part of: DM817_RS03005
location: 1650..2030
location: region:1650-2030:1
so has part: feature:1650-2030:1:exon

WP_113738584.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1650-2030:1:exon

DM817_RS03010
type: Gene
subclass of: SO_0000704
RO_0002162: 164516
locus tag: DM817_RS03010
so part of: sequence
location: 2035..2505
location: region:2035-2505:1
so has part: feature:2035-2505:1:exon
subclass of: SO_0000010

position:2035:1
position: 2035
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2505:1
position: 2505
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2035-2505:1:exon

DM817_RS03010
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 164516
locus tag: DM817_RS03010
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014726903.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF1599 domain-containing protein
translation: MRNNKTSMQYDVISNECRTHFLKKKFLIPKKLCNYILMKIYQNNWIEIVNYSVLAGIRIQKKKIDSMLSATITIDVYDQYIKKAKSLMEKKNSDYEEAWKYMSISSIKDLIMQKIFRIQGMEKRFYEVENYAYKVQDNYIDILNYAIFALIKMKNP
SIO_010081: DM817_RS03010
subclass of: SO_0000673
so part of: DM817_RS03010
location: 2035..2505
location: region:2035-2505:1
so has part: feature:2035-2505:1:exon

WP_113738585.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2035-2505:1:exon

DM817_RS03015
type: Gene
subclass of: SO_0000704
RO_0002162: 164516
gene: dut
locus tag: DM817_RS03015
so part of: sequence
location: complement(2510..2902)
location: region:2510-2902:-1
so has part: feature:2510-2902:-1:exon
subclass of: SO_0000010

position:2510:-1
position: 2510
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2902:-1
position: 2902
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2510-2902:-1:exon

DM817_RS03015
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 164516
gene: dut
locus tag: DM817_RS03015
EC number: 3.6.1.23
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014200386.1
GO function: GO:0004170 - dUTP diphosphatase activity [Evidence IEA]; GO:0000287 - magnesium ion binding [Evidence IEA]
GO process: GO:0006226 - dUMP biosynthetic process [Evidence IEA]; GO:0046081 - dUTP catabolic process [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: dUTP diphosphatase
translation: MSVLIKIRNLSHHIFPYYATEGAAGIDLQAYLEKEIIIPSMERKIIKTGIFIEIPTGYEAQIRPRSGLALRHGITVLNNPGTIDSDYRGEIKILLINLSSHTFTVKDGDRIAQIIVYKYEKVKWNEIKKK
SIO_010081: DM817_RS03015
subclass of: SO_0000673
so part of: DM817_RS03015
location: complement(2510..2902)
location: region:2510-2902:-1
so has part: feature:2510-2902:-1:exon

WP_014200386.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2510-2902:-1:exon

DM817_RS03020
type: Gene
subclass of: SO_0000704
RO_0002162: 164516
locus tag: DM817_RS03020
so part of: sequence
location: 2985..3287
location: region:2985-3287:1
so has part: feature:2985-3287:1:exon
subclass of: SO_0000010

position:2985:1
position: 2985
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3287:1
position: 3287
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2985-3287:1:exon

DM817_RS03020
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 164516
locus tag: DM817_RS03020
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: MKKLFFFILSMMFFTSCNDDNLTGGHPQEEQEKTNHPTIGMAMDPPPTTSSTSPFFLSDFEKDEKEKYRLQIEELMNQDSKLKQIIEELERAEKASKRRA
SIO_010081: DM817_RS03020
subclass of: SO_0000673
so part of: DM817_RS03020
location: 2985..3287
location: region:2985-3287:1
so has part: feature:2985-3287:1:exon

WP_152025808.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2985-3287:1:exon