LOCUS       NZ_CP141740             3726 bp    DNA     circular CON 21-APR-2024
DEFINITION  Escherichia coli strain 2023CK-01509 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP141740
VERSION     NZ_CP141740.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN38788848
            Assembly: GCF_034331185.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3726)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Pathogen: clinical or host-associated sample
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3726)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-DEC-2023) Utah Public Health Laboratory, Utah Public
            Health Laboratory Infectious Disease submission group, 4431 S 2700
            W, Salt Lake City, UT 84129, USA
REFERENCE   3  (bases 1 to 3726)
  CONSRTM   Clinical and Environmental Microbiology Branch: Whole genome
            sequencing antimicrobial resistance pathogens in the healthcare
            setting
  TITLE     Direct Submission
  JOURNAL   Submitted (12-DEC-2023) Division of Healthcare Quality Promotion, US
            Centers for Disease Control and Prevention, 1600 Clifton Rd,
            Atlanta, GA, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 20.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_034331185.1-RS_2024_04_21
            Annotation Date                   :: 04/21/2024 14:22:35
            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)                     :: 5,029
            CDSs (total)                      :: 4,907
            Genes (coding)                    :: 4,698
            CDSs (with protein)               :: 4,698
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 209
            CDSs (without protein)            :: 209
            Pseudo Genes (ambiguous residues) :: 0 of 209
            Pseudo Genes (frameshifted)       :: 67 of 209
            Pseudo Genes (incomplete)         :: 129 of 209
            Pseudo Genes (internal stop)      :: 48 of 209
            Pseudo Genes (multiple problems)  :: 34 of 209
            Pseudo Genes (short protein)      :: 4 of 209
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP141740.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3726
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2023CK-01509"
                     /isolation_source="Wound/Abscess"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA"
                     /collection_date="2023-11-02"
     gene            complement(96..299)
                     /locus_tag="VLW43_RS25115"
                     /old_locus_tag="VLW43_25115"
     CDS             complement(96..299)
                     /locus_tag="VLW43_RS25115"
                     /old_locus_tag="VLW43_25115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017191052.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_071597489.1"
                     /translation="MAIYVGPHNKIGRDGGSFQECDINTINHTVIRKYGRYCTIRDNEY
                     APPTSTPGRYWLQIYRTPDNTE"
                     /name="hypothetical protein"
     gene            complement(427..720)
                     /locus_tag="VLW43_RS25120"
                     /old_locus_tag="VLW43_25120"
     CDS             complement(427..720)
                     /locus_tag="VLW43_RS25120"
                     /old_locus_tag="VLW43_25120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000609279.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HigA family addiction module antitoxin"
                     /protein_id="WP_077636472.1"
                     /translation="MINLYDPVHPGEFIREMFMEPFEIPAAELADKLEVSQSALSRLLN
                     GKTDLSYEMALRLSKVIGRSAESWVNMQAQYSLSKSRKALSETLEHLHPMFP"
                     /name="HigA family addiction module antitoxin"
     gene            1060..1341
                     /locus_tag="VLW43_RS25125"
                     /old_locus_tag="VLW43_25125"
     CDS             1060..1341
                     /locus_tag="VLW43_RS25125"
                     /old_locus_tag="VLW43_25125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000594459.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_024167147.1"
                     /translation="MIKNIKHKGLRSFAEDGSTAGIQPHLAKKLRMILATLSTATCLQD
                     IVDVRALGCHPLKGDRKGEFSVEVNGNWRVVFKVEEPNVLDVDLEDYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            2499..2648
                     /locus_tag="VLW43_RS25130"
                     /old_locus_tag="VLW43_25130"
     CDS             2499..2648
                     /locus_tag="VLW43_RS25130"
                     /old_locus_tag="VLW43_25130"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001417847.1"
                     /translation="MPSEYDEQRDANDTQLPGEYDLFDLMAQVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            3032..3400
                     /locus_tag="VLW43_RS25135"
                     /old_locus_tag="VLW43_25135"
     CDS             3032..3400
                     /locus_tag="VLW43_RS25135"
                     /old_locus_tag="VLW43_25135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880027.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001273380.1"
                     /translation="MANFNPGPRTAIAAVRDSKNDIETWKKNGIRREEIVTVLNERYGL
                     NISLVAFDKALYRLRKSTDEPSLADVDSVSAAETNFSEASGPDNDFFLSGNDFMRAEEE
                     SQRVVESFRDSLSRKKGF"
                     /name="hypothetical protein"
     Typing          2291..2464
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.143"
                     /coverage="100.0"
                     /evalue="5.58e-78"
     Typing          complement(1821..2367)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.754"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 gcaacggatg ttatggtaaa taagagcgac agtcctagtc actcttaatg atagtcaccg
       61 taatgtggct gctttcgctg gggatggatt tttggttact cggtgttatc tggggttcga
      121 tagatctgta gccagtatcg gcctggtgtg cttgttggtg gtgcgtactc attatctcga
      181 atggtgcagt atcgtccgta tttgcggata acagtatgat tgatggtgtt gatgtcacat
      241 tcttggaatg agccaccatc acgacctatt ttgttgtgtg gtcctacata aattgccatt
      301 ttgttttcct tttcagggag ttaatgggca tcttatcggt gtttaacaac aatcacttct
      361 acatcaaatg aacggtagat atgcggagcg ttcgatggtg aaaagcccgc attcgcgggc
      421 ttttacttat ggaaacatcg gatgcagatg ctctagcgtc tcggataaag ccttacggct
      481 tttagagagg ctgtactgag cctgcatatt aacccacgac tctgcagagc ggcctataac
      541 tttagatagt cgaagagcca tctcataact aagatcagtt tttccattga gcaatctgct
      601 taatgcagat tgtgatactt caagcttatc agctaactct gcggcaggta tttcgaacgg
      661 ttccatgaac atttccctga tgaactcacc ggggtgtaca ggatcgtaaa gatttatcat
      721 gccttcctca gttggttttg tatttgatta cacaaaacat tttgttttct ttcgtattgc
      781 gcattgcaca atgtgcaagt gtctgttatt gacaaaaaaa gcagtaagct ttaggatgct
      841 ctgtggagca gaaagctacc gctaatatgg tgtcatagat tgactttttc aaggcgccat
      901 attgtatggt tatcgctcat ggaagtcaaa cgaggtaatc gacctcagag acaaacttac
      961 gtcaattatt ttaataatgc aaggggttca aatggacgct gttaaattgt tttctgttta
     1021 tagagacaga tatcgacgag atttttatgg agattataga tgataaaaaa cataaaacat
     1081 aaaggacttc ggagctttgc tgaagacggt agcaccgccg gaattcagcc ccatttagcg
     1141 aaaaaacttc gcatgatatt ggctacgcta agcaccgcaa catgccttca agatattgtg
     1201 gatgttaggg cgttgggatg tcaccccctc aaaggtgacc gtaaaggtga gttttccgta
     1261 gaggttaacg gaaactggag ggtagttttc aaggtggaag aacctaacgt cttagacgtc
     1321 gaccttgaag attatcatta gtaatcaaaa agtaagttgc taatccatcc tgacctgaat
     1381 atggatggat tagggacttt attcaaaaaa aagtccctct ggaggatttt atgagagcct
     1441 ttatgatttt gttgttccct ttgctgtgtg tcgtcatcgc aggggttctt gcagttcgag
     1501 acttgaatgg gtgggggtgg ttcttgtttg ttgctgtttt gtgtactgga gctgatacgg
     1561 tgcagaagca tgtttcctgc aagaataatt ccataagcga ttgaggcttt tagggttcgt
     1621 ccttgactga tttaatcgac aaagcgtatc ttatgttcga aacgaaaaaa ccgccctgca
     1681 aggcggtttt tcgaaggttc tcagagctac caactctttg aaccgcggta actggcttgg
     1741 aggagcgcag taaccaaatc tgtcctttca gtttagcctt aaccggcaca taacttcaag
     1801 actaactcct ctaaatcagt taccagtggc tgctgccagt ggcgcttttg catgtctttc
     1861 cgggttggac tcaagatgat agttaccgga caaggcgcag cggtcggact gaacgggggg
     1921 ttcgtgcata cagtccagct tggagcgaac tgcctacccg gaactgagtg tcaggcgtgg
     1981 aatgagataa acgcggccat aacagcggaa tgacaccggt aaaccaaaag gcaggaacag
     2041 gagagcgcac gagggagcca ctagggggaa acgcctggta tctttaagtc ctgtcgggtt
     2101 tcgccaccac tgatttgagc gtcagatttc gtgatgcttg tcaggggggc ggagcctatg
     2161 gaaaaacggc ttcgccgtgg ccttattgct tctccgttaa gcttcttctt ggcatctccc
     2221 aggaaatttc cgccccgcct gtaagttggt accgctcgcc gcagccgaac gaccgagcgc
     2281 agcgagtcag tgagcgagga agcggaatat atcctgtatc acatattctg ctgacgcacc
     2341 ggtgcagcct tttttctcct gccacatgaa gcacttcact gacaccctca tcagtgccaa
     2401 catagtaagc cagtatacac tctgctagcg ctacgtgact ggttcagggc tgcgccccga
     2461 aacccgctaa caacccctta gctactggat atcaccccat gccatctgag tatgatgaac
     2521 aacgggatgc gaatgatacg cagcttcccg gcgaatatga cctttttgat ttaatggcgc
     2581 aggttactga agagaacctg cacgccccgg tggattttgg gccgcctgtc ggcagggaag
     2641 cgttataact tttttcgctg gtcagcgtac gtgtaatacg ccggtattac atcttatttc
     2701 tttattttca tgtgattaca gatggttgta atacgttgtg tattacataa ataaacggga
     2761 aattcagttt ttacctttta attcatgcaa ttgcgatgaa aatcgcggtt gcgtatggtg
     2821 tatggccatt taagggataa tgtaacctga cttttaaaga atgaatctat ctttggcagc
     2881 gcatgagatc gataaaaagc gttccacatc aggcggttca tggatacatg aaccggaaag
     2941 gacaacaata agacaattgt aagacatttt ttgcgtttta ctcttatttt tggactatta
     3001 tgagacaaat gtaagacatt atgggcggta tatggcgaat tttaaccctg gtccaagaac
     3061 agccattgca gctgtcaggg attccaagaa cgatatagaa acctggaaga aaaatggtat
     3121 ccgtagggaa gagattgtga ctgtgctgaa tgaacgttac ggcctgaata tctcactggt
     3181 tgcgtttgat aaggctcttt acagattgag aaaaagtaca gatgaaccgt ctcttgctga
     3241 tgtggattct gtgtctgctg cagaaacgaa tttctctgaa gccagtgggc ctgacaatga
     3301 tttttttctg tccgggaatg acttcatgcg agcagaagaa gaatctcaaa gagtggttga
     3361 atcattcaga gatagcctta gcaggaagaa aggattctga ttttgaattc taagtagtga
     3421 aatagtggat cctctactcg aaattgtcgg atacctgcaa ttacctaccg tgccttatgg
     3481 cttggtcaat gcctcacggc cacgcaataa attgcgtccc cgttcaccgt ttcggataag
     3541 aagaacatcg gaaacaggac ttaccccggc tgaatggtgt gaaattctgc gctatgcact
     3601 tgcgcgcata ctcatgcatg ccgtaaaaac agagcctgcg cgtttctggc gggttttcgg
     3661 gtggtttgtt gcctgtttta ccggtttccc gtcagaaacg ccctgagggc ctctcaggcg
     3721 gtgcac
//
