U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



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 270130 assemblies for this organism

See more

History (Show revision history)

Comment

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).
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/  more

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::04/24/2023 01:18:25
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.5
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::5,096
CDSs (total)::4,978
Genes (coding)::4,813
CDSs (with protein)::4,813
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)::165
CDSs (without protein)::165
Pseudo Genes (ambiguous residues)::0 of 165
Pseudo Genes (frameshifted)::71 of 165
Pseudo Genes (incomplete)::100 of 165
Pseudo Genes (internal stop)::27 of 165
Pseudo Genes (multiple problems)::31 of 165
Pseudo Genes (short protein)::2 of 165
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

Access the data

Assembly Information

Related Information

PubMed articles for this assembly

Recent activity

Clear Turn Off Turn On

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

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