LOCUS       NZ_CP109926             3086 bp    DNA     circular CON 05-JUN-2024
DEFINITION  Escherichia coli O125ac:K+:H10 strain C 236-04A plasmid pP10A_2,
            complete sequence.
ACCESSION   NZ_CP109926
VERSION     NZ_CP109926.1
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 3086)
  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 3086)
  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
            CP109926.1.
            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..3086
                     /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_2"
                     /geo_loc_name="Denmark:Copenhagen"
                     /lat_lon="55.68 N 12.59 E"
                     /collection_date="2007"
                     /collected_by="Statens Serum Institut"
     gene            complement(join(3032..3086,1..377))
                     /locus_tag="N8A72_RS24330"
                     /old_locus_tag="N8A72_24330"
     CDS             complement(join(3032..3086,1..377))
                     /locus_tag="N8A72_RS24330"
                     /old_locus_tag="N8A72_24330"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001025244.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6530 family protein"
                     /protein_id="WP_053274236.1"
                     /translation="MNIPTHLKHKPIIAVENYDRIDGPYADDTDAMGLSVGIAQWNTPG
                     YTELSAKVWRNTGEKWSRQSEELPLHRVIDLATLICIAMDYSKHGRLSSSDDFPVSRSG
                     GNPELSRHIDLMKNELKENHEYLDESLKRLAAELKRLGY"
                     /name="DUF6530 family protein"
     gene            complement(707..820)
                     /locus_tag="N8A72_RS24335"
                     /old_locus_tag="N8A72_24335"
     CDS             complement(707..820)
                     /locus_tag="N8A72_RS24335"
                     /old_locus_tag="N8A72_24335"
                     /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_032634168.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     gene            1380..1529
                     /locus_tag="N8A72_RS24340"
                     /old_locus_tag="N8A72_24340"
     CDS             1380..1529
                     /locus_tag="N8A72_RS24340"
                     /old_locus_tag="N8A72_24340"
                     /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_179198369.1"
                     /translation="MPSEYDEQRDATDTQLLGEYDLFDLMAKVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            1913..2281
                     /locus_tag="N8A72_RS24345"
                     /old_locus_tag="N8A72_24345"
     CDS             1913..2281
                     /locus_tag="N8A72_RS24345"
                     /old_locus_tag="N8A72_24345"
                     /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_001273382.1"
                     /translation="MANFNPGPRTAIAAVRDSKNDIETWKKNGIRREEIVTVLNERYGL
                     NISLVAFDKALYRLRKSTDEPSLADVDSVSAAETNFSEASGPENGFFLSENDFMRAEEE
                     SQRMVESFRDSLGRKKGF"
                     /name="hypothetical protein"
     gene            complement(2619..2948)
                     /locus_tag="N8A72_RS24350"
                     /old_locus_tag="N8A72_24350"
     CDS             complement(2619..2948)
                     /locus_tag="N8A72_RS24350"
                     /old_locus_tag="N8A72_24350"
                     /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_191641126.1"
                     /translation="MKLLPAEPGLYFFASFESGAHVYKVVAWSENENGGLDPQCVLTAL
                     YDKSSSSQQWELHSTSASAYQHSNDGRPFMYFITYFTSNGGIPELYNAINTLAERWGYP
                     LIDLP"
                     /name="hypothetical protein"
     Typing          1173..1387
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.425"
                     /coverage="100.0"
                     /evalue="1.6000000000000006e-59"
     Typing          complement(708..1197)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.475"
                     /coverage="94.0"
                     /evalue="1.6700000000000003e-157"
ORIGIN
        1 tactcgtgat tctcttttag ctcgtttttc attaaatcaa tgtgacgaga taactcagga
       61 ttgcctcctg aacgactgac cggaaagtcg tcgctggaag ataagcggcc atgtttactg
      121 taatccattg ctatgcagat aagcgttgcc aagtcgataa cacgatgaag aggtaattct
      181 tctgattgcc gtgaccactt ttctccggtg ttgcgccaca cttttgctga tagctcggta
      241 tacccggggg tgttccattg agcaattcca acggaaagcc ccatagcatc agtgtcatca
      301 gcataaggtc catcaattcg atcatagttt tctacagcga taatcggttt gtgtttcaga
      361 tgagtaggga tgttcatatc attctctttt atgtgaattt aggttgttaa ttaataaaat
      421 aacaaaacaa cttattttac taattagtaa gtgtaacatt ttgtgaattg atggatttga
      481 agttgttggc gtggatcttc ttgagatcat ttatggctga gcgtaatctc ttgctctgaa
      541 aacgaaaaaa ccacctgggg aggtggtttg atcgaaggtt aggtcagttg gggaactgct
      601 taaccaggta actgtcttgt gcgagacgag tcaccaaaac tgtccttcca gtgtagccgt
      661 tctcaggctc ccacttcaag aactccagat aaatctctcg cacatctcag ttaccagtgg
      721 ctgctgccag tggcgctttt gcatgtcttt ccgggttgga ctcaagacga tagttaccgg
      781 acaaggcgca gcagtcggac tgaacggggg gttcgtgcat acagtccatc ctggagcgaa
      841 ctgcctaccc ggaactgagt gtcaggcgtg gaatgagata aacgcggcca taacagcgga
      901 atgacaccgg taaaccgaag ggcaggaatg cgggggagca cgagggagcc atcaggggga
      961 aacgcctggt atctctaagc cgcatcgggt ttcgccacca ctgatttgag cgtctgattt
     1021 tgtgatgctc ggcagggggg cggagcctat ggaaaaacgg ctacgccgca tcctttttca
     1081 gcccttcctg atttccgctt agtctcttta tccagccatt cgtgagctgg caacgcccgc
     1141 cgcagtctca cggcaggagc gcagcgaccg agtgagcgag gaggcgtcat ttcaccgaga
     1201 tctgcatttc gcacttacac accggtgctg catttcccgg taccacatga agcactttcg
     1261 taaaccatta ctgcgttgta acattttaag ccagtataca ctccgctagc gctacgtgac
     1321 tggttcaggg ctgcgccccg aaacccgcta acaacccctt agctactgga tatcacccca
     1381 tgccatctga atatgatgaa caacgggatg cgactgatac gcagcttctc ggcgaatatg
     1441 acctttttga tttaatggcg aaggttactg aagagaacct gcacgccccg gtggattttg
     1501 gcccgcctgt cggcagggaa gcgttataac ttttttcgct ggtcagcgta cgtgtaatac
     1561 gccggtatta catcttattt ctttattttc atgtgattac aggtggttgt aatacgttgc
     1621 gtattacata aataaacggg aaattcagtt tttacctttt aattcatgca attgcgatga
     1681 aaatcgcggt tgcgtatggt gtatggccat ttaagggata atgtaacctg acttttaaag
     1741 aatgaatcta tctttggcag cgcatgagat cgataaaaag cgttccacat caggcggttc
     1801 atggatacat gaaccggaaa ggacaaaaat aagacaattg taagacattt tttgcgtttt
     1861 actcttattt ttggactatt atgagacaaa tgtaagacat tatgggcggt atatggcgaa
     1921 ttttaaccct ggtccaagaa cagccattgc agctgtcagg gattccaaga acgatataga
     1981 aacctggaag aaaaatggta tccgtaggga agagattgtg actgtgctga atgaacgtta
     2041 cggcctgaat atctcactgg ttgcgtttga taaggctctt tacagattga gaaaaagtac
     2101 agatgaaccg tctcttgctg atgtggattc agtgtctgct gcagaaacga atttctctga
     2161 agccagtggg cctgaaaatg gtttttttct gtccgagaat gacttcatgc gagcagaaga
     2221 agaatctcaa agaatggttg agtcattcag agatagcctt ggcaggaaga aaggattctg
     2281 attttgaatt ctaagtagtg aaatagtgga tcctctactc gaaattgtcg gatacctgca
     2341 attacctacc gtgccttacg gcttggtcaa tgccttacgg ccacgcaata aattgcgtcc
     2401 ccgttcaccg ttttcggata agaagaacat cggaaacagg acttaccccg gctgaatggt
     2461 gtgaaattct gcgctatgca cttgcgcgca tactcatgca tgccgtaaaa acagagcctg
     2521 cacgtttctg gcgggttttc gggtggtttg ttgcctgttt taccggtttc ccgtcagaaa
     2581 cgccctgagg gcctctcagg cggtgcacgc aagagatgtt atggtaaatc aattaatggg
     2641 tatccccatc gttcggctag tgtgtttatt gcgttataaa gttcaggtat cccgccattg
     2701 ctggtgaagt aggtgataaa atacataaat ggtctgccgt cattgctgtg ctgatatgca
     2761 gatgctgaag ttgagtgaag ttcccattgc tggctggaac tgctcttgtc atataaggcc
     2821 gttaacacac actgtggatc taaaccacca ttctcatttt ctgaccaggc cactactttg
     2881 taaacgtgag caccggactc aaaagatgcg aaaaaatata atcccggttc agctggtagg
     2941 agcttcatta gctagcttcc ttttgtttat tctgtctgag aggcaataac tacctaattc
     3001 cccgtggtgg gtataaaaaa tcacggggag gttaataacc taaacgtttt agttctgctg
     3061 ctaaacgctt aagactctca tctaaa
//
