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ASM1038v1

Organism name:
Escherichia coli SE11 (E. coli)
Taxonomy check:
OK
Infraspecific name:
Strain: SE11
BioSample:
SAMD00061087
BioProject:
PRJNA18057
Submitter:
Kitasato Institute for Life Sciences
Date:
2008/10/22
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
Relation to type material:
assembly designated as clade exemplar
GenBank assembly accession:
GCA_000010385.1 (latest)
RefSeq assembly accession:
GCF_000010385.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes

IDs: 31888 [UID] 11188 [GenBank] 31888 [RefSeq]

See Genome Information for Escherichia coli

Pathogen Detection Resources

There are 274145 assemblies for this organism

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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/
This work was done in collaboration with Yoshitoshi Ogura, Tadasuke Ooka, and Tetsuya Hayashi (University of Miyazaki), Sang-Hee Park and ... Kikuji Itoh (University of Tokyo), and Hidetoshi Morita (Azabu University).  more

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Name::GCF_000010385.1-RS_2024_06_01
Annotation Date::06/01/2024 01:28:55
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)::5,106
CDSs (total)::4,988
Genes (coding)::4,817
CDSs (with protein)::4,817
Genes (RNA)::118
rRNAs::8, 7, 7 (5S, 16S, 23S)
complete rRNAs::8, 7, 7 (5S, 16S, 23S)
tRNAs::87
ncRNAs::9
Pseudo Genes (total)::171
CDSs (without protein)::171
Pseudo Genes (ambiguous residues)::0 of 171
Pseudo Genes (frameshifted)::74 of 171
Pseudo Genes (incomplete)::107 of 171
Pseudo Genes (internal stop)::28 of 171
Pseudo Genes (multiple problems)::34 of 171
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,155,626
Total ungapped length5,155,626
Total number of chromosomes and plasmids7

Supplemental Content

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Assembly Information

Related Information

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_000010395.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome AP009240.1=NC_011415.1
Plasmid pSE11-1AP009241.1=NC_011419.1
Plasmid pSE11-2AP009242.1=NC_011413.1
Plasmid pSE11-3AP009243.1=NC_011416.1
Plasmid pSE11-4AP009244.1=NC_011407.1
Plasmid pSE11-5AP009245.1=NC_011408.1
Plasmid pSE11-6AP009246.1=NC_011411.1

Assembly statistics

MoleculeTotal
Length
All5,155,626
Chromosome 4,887,515
Plasmid pSE11-1100,021
Plasmid pSE11-291,158
Plasmid pSE11-360,555
Plasmid pSE11-46,929
Plasmid pSE11-55,366
Plasmid pSE11-64,082

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Escherichia coli SE11Escherichia coli

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000263895.1Escherichia coli O103:H25 str. CVM9340claderef

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000263895.1Escherichia colicladeref

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.9086.7184.98
Best-match type98.9086.7184.98

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna