LOCUS       NZ_CP109927             2455 bp    DNA     circular CON 05-JUN-2024
DEFINITION  Escherichia coli O125ac:K+:H10 strain C 236-04A plasmid pP10A_3,
            complete sequence.
ACCESSION   NZ_CP109927
VERSION     NZ_CP109927.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30931041
            Assembly: GCF_025946545.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O125ac:K+:H10
  ORGANISM  Escherichia coli O125ac:K+:H10
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2455)
  AUTHORS   Meski,S., Struve,C., Mirsepasi-Lauridsen,H.C., Petersen,A.M.,
            Jelsbak,L., Skovgaard,O. and Krogfelt,K.A.
  TITLE     Complete Genome Sequences of Extraintestinal Pathogenic Escherichia
            coli Clinical Isolates from Danish Ulcerative Colitis Patients
  JOURNAL   Microbiol Resour Announc 12 (2), e0118622 (2023)
   PUBMED   36715532
REFERENCE   2  (bases 1 to 2455)
  AUTHORS   Skovgaard,O., Krogfelt,K.A., Jelsbak,L. and Meski,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-OCT-2022) Department of Science and Environment,
            Roskilde University, Universitetvej 1, Roskilde 4000, Denmark
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: MAY-2022
            Assembly Method :: Flye v. v2.9; Minimap2 v. v2.24-r1122; Miniasm v.
            v0.3-r179; Racon v. v1.4.3; SPAdes v. v3.15
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 300x
            Sequencing Technology :: Oxford Nanopore MinION; BGISEQ-500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_025946545.1-RS_2024_06_05
            Annotation Date                   :: 06/05/2024 03:53:42
            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)                     :: 4,899
            CDSs (total)                      :: 4,782
            Genes (coding)                    :: 4,578
            CDSs (with protein)               :: 4,578
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 204
            CDSs (without protein)            :: 204
            Pseudo Genes (ambiguous residues) :: 0 of 204
            Pseudo Genes (frameshifted)       :: 58 of 204
            Pseudo Genes (incomplete)         :: 141 of 204
            Pseudo Genes (internal stop)      :: 38 of 204
            Pseudo Genes (multiple problems)  :: 30 of 204
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP109927.1.
            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..2455
                     /organism="Escherichia coli O125ac:K+:H10"
                     /mol_type="genomic DNA"
                     /strain="C 236-04A"
                     /serotype="O125ac:K+:H10"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /culture_collection="SSI<DNK>:C236-04A"
                     /db_xref="taxon:2990470"
                     /plasmid="pP10A_3"
                     /geo_loc_name="Denmark:Copenhagen"
                     /lat_lon="55.68 N 12.59 E"
                     /collection_date="2007"
                     /collected_by="Statens Serum Institut"
     gene            complement(147..446)
                     /locus_tag="N8A72_RS24355"
                     /old_locus_tag="N8A72_24355"
     CDS             complement(147..446)
                     /locus_tag="N8A72_RS24355"
                     /old_locus_tag="N8A72_24355"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016247612.1"
                     /translation="MKKILFCSLLLLSASSFAQQFHYQCEGRDLKIMLSPNAAFLDGKS
                     FEYKNGETNGETTKMTFFGPSGEVLKFLVNPVNNLYRMGLTSGATFEEINCTEI"
                     /name="hypothetical protein"
     gene            complement(470..709)
                     /locus_tag="N8A72_RS24360"
                     /old_locus_tag="N8A72_24360"
     CDS             complement(470..709)
                     /locus_tag="N8A72_RS24360"
                     /old_locus_tag="N8A72_24360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001560795.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001560795.1"
                     /translation="MIKKICITVIVVFLLLVGYGAWIGSEQNQRGVSLFEVAYTYNAMN
                     PISRIGYTFMLKRNHALVERAGEVKKSIDSMSGE"
                     /name="hypothetical protein"
     gene            942..1130
                     /locus_tag="N8A72_RS24365"
                     /old_locus_tag="N8A72_24365"
     CDS             942..1130
                     /locus_tag="N8A72_RS24365"
                     /old_locus_tag="N8A72_24365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165998.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1178..1405)
                     /locus_tag="N8A72_RS24370"
                     /old_locus_tag="N8A72_24370"
     CDS             complement(1178..1405)
                     /locus_tag="N8A72_RS24370"
                     /old_locus_tag="N8A72_24370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001046776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_206659768.1"
                     /translation="MFGFSPGELMNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRH
                     IVSDTNQARRSCMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            1652..1783
                     /locus_tag="N8A72_RS24375"
                     /old_locus_tag="N8A72_24375"
     CDS             1652..1783
                     /locus_tag="N8A72_RS24375"
                     /old_locus_tag="N8A72_24375"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_264455640.1"
                     /translation="MPRKGQDMFCSTATTVAILQNAWSGHSPDTPEPTVGHWANAAE"
                     /name="hypothetical protein"
     gene            2260..2373
                     /locus_tag="N8A72_RS24380"
                     /old_locus_tag="N8A72_24380"
     CDS             2260..2373
                     /locus_tag="N8A72_RS24380"
                     /old_locus_tag="N8A72_24380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_059570819.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     Typing          1879..2369
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.335"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 cagttacctc ggttcaaaga gttggtagct cagagaacct tcgaaaaacc gccttgcagg
       61 gcggtttttt cgttttcaga gcaagagatt acgcgcagac caaaacgatc tcaagaagat
      121 catcttatta atcagataaa atatttctag atttcagtgc aatttatctc ttcaaatgta
      181 gcacctgaag tcagccccat acgatataag ttgttgacag gattaaccaa aaacttgaga
      241 acctcaccag aaggaccaaa gaaggtcatc tttgtcgttt ccccattcgt ctctccattc
      301 ttatattcga atgatttacc atcaagaaaa gctgcattag gtgaaagcat tatctttaaa
      361 tctcgtcctt cacactgata atggaattgt tgtgcaaatg aacttgcaga aagaagaagc
      421 agcgaacaaa aaagtatctt tttcatatca gtcctttaaa tttaaaaaat cactcaccac
      481 tcatgctatc aatagatttc ttaacctctc cagccctctc gactaaagca tgatttctct
      541 tcagcataaa tgtatagccg atccgactaa ttggattcat tgcgttgtat gtatatgcaa
      601 cctcaaataa agatactcct cgctgatttt gctcagatcc aatccaagca ccatagccaa
      661 ccaacagcaa aaaaacgacg ataacagtaa tgcagatttt ttttatcatt ccctatccag
      721 ataatatgaa gaaaacagaa ttgaacataa catccgttgc gtgcaccgcc tgagaggctc
      781 tcagggcgtt tctacgacct cacctgcaaa agaacacatc ttaccccctg aaaaccgctc
      841 agaaacgcgc tgatgatttc tgcgtacctg catggctatg cactcaagtg aatgaagtaa
      901 gatttcagtc tgcgatcacc ataaaaccgg gaaaaagccg tatgacaaaa caggaatcag
      961 ccgcactgaa catggcaaaa tttatccggg cgcagtcgct gctgctgctc gaaaaactcg
     1021 acgtgctcga tcttgatgac gaggcagccg actgtgagcg aatgcacgaa caggcagaag
     1081 cgctttatca gaagctgagc gcacgcttcg gtatacagga cggcgaataa agagacgaaa
     1141 agaacgctca cttagacgaa aagcgtatcc agggcaacta tgtatatcca ccgtgtacat
     1201 agtcatgcct gacgctttcg agcaggtcga gcatgcagga acgacgagct tgattggtat
     1261 cggacacaat atggcgatac gcctcaaaca taacagcacc cgcatcaccg cccgaacggc
     1321 gaagcatagc ggaaatcatc cgcacaaaga gcagacgttc atcggggcaa aggttcataa
     1381 gttctcctgg tgaaaaacca aacatgaaag cacccatcta ttaacgtcag ctgtgaacgc
     1441 ttcattagaa gaaaataggt aaacccggga aaaagatcca aacgttaaca tcacaggtaa
     1501 acagaaacgt cgggtcgatc gggaaattct ttcccggacg gcgcggggtt gggcaagccg
     1561 caggcgcgtc agtgctttta gcgggtgtcg gggcgcagcc ctgaaccagt cacgtagcgc
     1621 tagcggagtg tatactggct aaacttcaga gatgccaagg aagggacagg atatgttttg
     1681 tagcaccgcc accacggtgg cgatactcca aaacgcctgg tcagggcaca gccccgacac
     1741 cccagagccg actgtaggtc actgggcgaa cgcggcggaa tgatgtcgga tgacgtcatt
     1801 ttgcggcgtt cgccctatcc tgcatcgtat taaaaaatgc agctatggcg cgtacggtgc
     1861 caaagataag cccggagata ttccgcttcc tcgctcactg actcgctgcg ctcggtcgtt
     1921 cggctgcggc gagcggtacc ggcttactgg cggggcggaa atttcctggc atcttccagg
     1981 aagaagctta acagggaagc aagaaggcca cggcgaagcc gtttttccat aggctccgcc
     2041 cccctgacaa gcatcacgaa atctgacgct caaatcagtg gtggcgaaac ccgacaggac
     2101 tataaagata ccaggcgttt ccccctggtg gctccctcgt gcgctctcct gttcctgcct
     2161 ttcggtttac cggtgtcatt ccgctgttat ggccgcgttt gtctcattcc acgcctgaca
     2221 ctcagttccg ggtaggcagt tcgctccaag ctggactgta tgcacgaacc ccccgttcag
     2281 tccgaccgct gcgccttatc cggtaactat cgtcttgagt ccaacccgga aagacatgca
     2341 aaagcaccac tggcagcagc cactggtaac tgatttagag gagttagtct tgaagtcatg
     2401 cgccggttaa ggctaaactg aaaggacaag ttttggtgac tgcgctcctc caagc
//
