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ASM2303823v1

Organism name:
Shinella oryzae (a-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: Z-25
BioSample:
SAMN20929830
BioProject:
PRJNA756894
Submitter:
BIOTECHNOLOGY RESEARCH INSTITUTE, CAAS
Date:
2022/04/18
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
RefSeq category:
representative genome
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_023038235.1 (latest)
RefSeq assembly accession:
GCF_023038235.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
SPAdes v. 3.15.2
Expected final version:
yes
Genome coverage:
100.0x
Sequencing technology:
PacBio; Illumina HiSeq

IDs: 12550591 [UID] 32837498 [GenBank] 32916248 [RefSeq]

See Genome Information for Shinella oryzae

There are 2 assemblies for this organism

See more

History (Show revision history)

Comment

The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Name::GCF_023038235.1-RS_2024_05_08
Annotation Date::05/08/2024 07:55:49
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.7
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::5,001
CDSs (total)::4,937
Genes (coding)::4,894
CDSs (with protein)::4,894
Genes (RNA)::64
rRNAs::3, 3, 3 (5S, 16S, 23S)
complete rRNAs::3, 3, 3 (5S, 16S, 23S)
tRNAs::51
ncRNAs::4
Pseudo Genes (total)::43
CDSs (without protein)::43
Pseudo Genes (ambiguous residues)::0 of 43
Pseudo Genes (frameshifted)::14 of 43
Pseudo Genes (incomplete)::32 of 43
Pseudo Genes (internal stop)::7 of 43
Pseudo Genes (multiple problems)::7 of 43
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,215,421
Total ungapped length5,215,421
Total number of chromosomes and plasmids2

Supplemental Content

PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
Assembly Unit: Primary Assembly (GCF_023038245.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP081987.1=NZ_CP081987.1
Plasmid pZ25CP081988.1=NZ_CP081988.1

Assembly statistics

MoleculeTotal
Length
All5,215,421
Chromosome 3,326,466
Plasmid pZ251,888,955

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Shinella oryzaeShinella oryzae

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_004514425.2Shinella sumterensistype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type96.7386.0883.55

ANI result

Taxonomy check statusBest match statusComment
OKmismatchAssembly is the type-strain, mismatch is within genus and expected