LOCUS       NZ_CP104687             2641 bp    DNA     circular CON 09-OCT-2023
DEFINITION  Escherichia coli strain 2022CK-00450 plasmid unnamed6, complete
            sequence.
ACCESSION   NZ_CP104687
VERSION     NZ_CP104687.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30655617
            Assembly: GCF_025398755.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2641)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     2022CK-00450
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2641)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-SEP-2022) Utah Public Health Laboratory, Utah Public
            Health Laboratory Infectious Disease submission group, 4431 S 2700
            W, Salt Lake City, UT 84129, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 83.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/09/2023 03:52:08
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,192
            CDSs (total)                      :: 5,075
            Genes (coding)                    :: 4,823
            CDSs (with protein)               :: 4,823
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 252
            CDSs (without protein)            :: 252
            Pseudo Genes (ambiguous residues) :: 0 of 252
            Pseudo Genes (frameshifted)       :: 58 of 252
            Pseudo Genes (incomplete)         :: 183 of 252
            Pseudo Genes (internal stop)      :: 42 of 252
            Pseudo Genes (multiple problems)  :: 34 of 252
            Pseudo Genes (short protein)      :: 4 of 252
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP104687.1.
            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..2641
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2022CK-00450"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="unnamed6"
                     /geo_loc_name="USA"
                     /collection_date="2022-07-20"
     gene            join(2583..2641,1..88)
                     /locus_tag="N5922_RS25805"
                     /old_locus_tag="N5922_25795"
     CDS             join(2583..2641,1..88)
                     /locus_tag="N5922_RS25805"
                     /old_locus_tag="N5922_25795"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_162535423.1"
                     /translation="MHEPPVQSDRCAFSGNYRLESNPERHDLSPLAAATGKRVYKRLLM
                     QSS"
                     /name="replication initiation protein"
     gene            complement(378..653)
                     /locus_tag="N5922_RS25810"
                     /old_locus_tag="N5922_25800"
     CDS             complement(378..653)
                     /locus_tag="N5922_RS25810"
                     /old_locus_tag="N5922_25800"
                     /inference="COORDINATES: protein motif:HMM:NF016875.3"
                     /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_094544860.1"
                     /translation="MIKNFKSKKLKQFNSGDTSKVAQAHKKKIEIILNALDTATSINDL
                     DLPGLDLHSYAEYTPTRWSLKVSANYRIFFEWDGANVRNVDYDDPH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            867..1265
                     /locus_tag="N5922_RS25815"
                     /old_locus_tag="N5922_25805"
     CDS             867..1265
                     /locus_tag="N5922_RS25815"
                     /old_locus_tag="N5922_25805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_018233413.1"
                     /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_224706373.1"
                     /translation="MSIGLRVAQGAKSEYLGGCMFTLQKPMHPGEFIREVYLEPLELQI
                     GTFAEKLGVDTSTVSRLVNQKADLSYEMALRLSKALGRSADSWMKMQIAYGLYRAQDKV
                     NLEEVEVVYRPRNLDAPEKQVHEFYENI"
                     /name="HigA family addiction module antitoxin"
     Typing          2216..2641
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="84.0"
                     /evalue="4.76e-153"
ORIGIN
        1 gtccaacccg gaaaggcacg acttatcgcc actggcagcg gccactggta agagggtgta
       61 caagagatta ctaatgcaga gttcttgaag tatcagccta actacggcta aactggaagg
      121 acgtatttgg tggcagcggt cttgtacacc ctgttaccac ggttcagaag ttccccaact
      181 tgctgaacct tcgaaaaacc acctccccag gtggtttttt cgtttcagga ttaaagatac
      241 tctgcgtccc actcaatctc aagaaattat ctttaccaag ccattgactt aataaaaaaa
      301 aaccatataa tagcctcatg ggcttgaatc actttagtga ttcaagccca tgacctaagt
      361 cgttgattta actgagatta atgtggatcg tcgtaatcca cattacggac gttggcacca
      421 tcccactcaa agaaaatacg atagttcgcc gacaccttta atgaccagcg ggttggggta
      481 tattcagcat acgaatgaag atccaaacca ggaaggtcaa gatcatttat tgaagtagcg
      541 gtatctaaag cgtttaagat aatctctatt ttctttttat gcgcttgtgc taccttactt
      601 gtatcaccac tgttaaattg ttttagtttt ttggatttaa aatttttaat cattgaactt
      661 ctccatatga aaatttttat gttttagaag ttcttcttgt ttagtaaagt ttcttgacta
      721 tgttctattt ataggtagta ttctacgcct gcgaagcttt agaactgcca gatagtcact
      781 acaagaacaa aacagaagaa ccaaactgtt aacgttaaga aaaaaattac ccttaactaa
      841 tccattttat cacaaatgga ttgcttatgt caataggttt gcgcgttgcg caaggcgcaa
      901 aatcagagta tttaggaggt tgcatgttta cattgcaaaa acctatgcac cccggcgagt
      961 ttatccgcga agtatattta gagccgttag agcttcaaat aggaacgttt gcagaaaagc
     1021 ttggtgttga tacatcaacc gttagccggt tagtaaacca aaaagctgac ctttcttatg
     1081 aaatggcatt acgcctatca aaagccttag ggcgttctgc tgactcttgg atgaaaatgc
     1141 aaatagcata tggtttatat cgtgctcaag ataaagtaaa tcttgaagaa gttgaggtgg
     1201 tttaccgccc acggaacttg gatgctcctg aaaaacaggt ccatgaattt tatgaaaata
     1261 tctaaaaacg atatttcatt taggtaaaga aaagctccta accatagggg ctttttgtct
     1321 ctacacctgt gtatttatgt gaagacctaa ggcagcatcg ttattcctga agatgcttaa
     1381 acagcgggtg ttgagcctgt atcaaccatt gatagtgatc tgtatatcct cttcactaac
     1441 cccaaacttc atagccagcc cccttctatg cttacctaga gaatttacca taacatccgt
     1501 tgcccgcacc gcctgagagg ctctcagggc gtttctacga cctcacctgc aaaagaacac
     1561 atcttacccc ctgaaaaccg ctcagaaacg cgctgatgat ttctgagcat gtgcatgtct
     1621 atgcacgcga acgcatgccc gcgtttttag cagctaaaat ccgtcgaacg ccctgaaagc
     1681 catcatgaac caccctgata acggtgaacg ggtgcgcagt ttactgtgct gccgtgaggt
     1741 gttggccagg ccgtcaggca tggaaggatt tattgctaag ggggtcggat ttaacgtgga
     1801 tgaatcagca cgcagtgatg aacgggattc ggaaggggaa cccttgcggc gcggcgatgt
     1861 atacatcgct aacgtgcctg actcttttca cagcagaggg tagcggtagc aaacaagtag
     1921 caaacagata gcaaacaagt agcaaacagg tagcaaaaag atagcaaaca tacggtttcg
     1981 ggcggaacct gaccaggagt cattggcgtg ccggcggtac tccaaaaaca catattgtcc
     2041 cgctgttttg tgaataagcc agcatagctg tgggcacaaa acatttcctg tccgctgctt
     2101 taacctttgt aatccaggaa cgtcaggtga cgtcactttg cggcgttagc cctatcctgc
     2161 atcctatgaa aaaatgcagt tacggagtgt aaggtgccgg acgtgaggcc gaagatattc
     2221 cgcttcctcg ctcactgact cgctgcgctc ggtcgttcgg ctgcggcgag cggagggaac
     2281 aggcacatca aaagatgaag ccatgaggga cgatgagagg gaaaaaaacg ccgcggtgtt
     2341 gccggttttc cataggctcc gcccccctga caagcatcac agaatctgac gctcaaatca
     2401 gtggtggcga aacccgacag gactataaag atcccaggcg tttccccctg gtagctccct
     2461 cgtgcgctct cctgttcctg cctttcggtt taccggtgtc actccgctgt tatggccgcg
     2521 tttatctcat tccacgcctg acactcagtt ccgggtaggc agttcgctcc aagctggact
     2581 gtatgcacga accccccgtt cagtccgacc gctgcgcctt ttccggtaac tatcgtcttg
     2641 a
//
