LOCUS NZ_NJUP01000107 4306 bp DNA linear CON 28-APR-2024
DEFINITION Escherichia coli strain MOD1-EC1666
MOD1-EC1666_107_length_4306_cov_63.1163, whole genome shotgun
sequence.
ACCESSION NZ_NJUP01000107 NZ_NJUP01000000
VERSION NZ_NJUP01000107.1
DBLINK BioProject: PRJNA224116
BioSample: SAMN05607377
Assembly: GCF_002460615.1
KEYWORDS WGS; RefSeq.
SOURCE Escherichia coli
ORGANISM Escherichia coli
Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
Enterobacterales; Enterobacteriaceae; Escherichia.
REFERENCE 1 (bases 1 to 4306)
AUTHORS Gangiredla,J., Mammel,M.K., Barnaba,T.J., Tartera,C., Gebru,S.T.,
Patel,I.R., Leonard,S.R., Kotewicz,M.L., Lampel,K.A., Elkins,C.A.
and Lacher,D.W.
TITLE Species-Wide Collection of Escherichia coli Isolates for
Examination of Genomic Diversity
JOURNAL Genome Announc 5 (50), e01321-17 (2017)
PUBMED 29242221
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 4306)
AUTHORS Gangiredla,J., Barnaba,T., Gebru,S., Mammel,M.K., Lacher,D.,
Tartera,C., Patel,I.R., Leonard,S., Lampel,K.A. and Elkins,C.A.
TITLE Direct Submission
JOURNAL Submitted (21-JUN-2017) CFSAN-ORS-DM-MMSB, US Food and Drug
Administration, 5100 Paint Branch Parkway, College Park, MD 20740,
USA
COMMENT REFSEQ INFORMATION: The reference sequence is identical to
NJUP01000107.1.
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-Assembly-Data-START##
Assembly Method :: SPAdes v. 3.8.2
Genome Representation :: Full
Expected Final Version :: Yes
Genome Coverage :: 57.6x
Sequencing Technology :: Illumina NextSeq 500
##Genome-Assembly-Data-END##
##Genome-Annotation-Data-START##
Annotation Provider :: NCBI RefSeq
Annotation Name :: GCF_002460615.1-RS_2024_04_28
Annotation Date :: 04/28/2024 01:25:34
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) :: 5,598
CDSs (total) :: 5,509
Genes (coding) :: 5,173
CDSs (with protein) :: 5,173
Genes (RNA) :: 89
rRNAs :: 3, 2, 2 (5S, 16S, 23S)
complete rRNAs :: 1, 1 (5S, 16S)
partial rRNAs :: 2, 1, 2 (5S, 16S, 23S)
tRNAs :: 71
ncRNAs :: 11
Pseudo Genes (total) :: 336
CDSs (without protein) :: 336
Pseudo Genes (ambiguous residues) :: 0 of 336
Pseudo Genes (frameshifted) :: 88 of 336
Pseudo Genes (incomplete) :: 231 of 336
Pseudo Genes (internal stop) :: 55 of 336
Pseudo Genes (multiple problems) :: 37 of 336
Pseudo Genes (short protein) :: 2 of 336
CRISPR Arrays :: 2
##Genome-Annotation-Data-END##
FEATURES Location/Qualifiers
source 1..4306
/organism="Escherichia coli"
/mol_type="genomic DNA"
/submitter_seqid="MOD1-EC1666_107_length_4306_cov_63.1163"
/strain="MOD1-EC1666"
/serotype="O174:H8"
/isolation_source="feces (Ovis aries)"
/host="Ovis aries"
/db_xref="taxon:562"
/geo_loc_name="Norway"
/collection_date="2001"
/collected_by="Michigan State University"
gene <1..>4306
/gene="cdiA"
/locus_tag="BGJ64_RS27510"
/pseudo
CDS <1..>4306
/gene="cdiA"
/locus_tag="BGJ64_RS27510"
/inference="COORDINATES: similar to AA
sequence:RefSeq:WP_001385946.1"
/note="incomplete; too short partial abutting assembly
gap; missing N-terminus and C-terminus; Derived by
automated computational analysis using gene prediction
method: Protein Homology."
/pseudo
/codon_start=1
/transl_table=11
/product="contact-dependent inhibition toxin CdiA"
CONTIG join(NJUP01000107.1:1..4306)
//