LOCUS       NZ_CP115318             4663 bp    DNA     circular CON 03-SEP-2023
DEFINITION  Escherichia coli strain CUVET18-789 plasmid pCUVET18-789.6, complete
            sequence.
ACCESSION   NZ_CP115318
VERSION     NZ_CP115318.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32339855
            Assembly: GCF_030995165.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4663)
  AUTHORS   Sroithongkham,P., Pinpimai,K., Payungporn,S., Nimsamer,P.,
            Pakdeesanaeha,T., Ponglowhapan,S. and Chanchaithong,P.
  TITLE     Multidrug-resistant extraintestinal pathogenic Escherichia coli
            causing urinary tract, genital tract and bloodstream infections in
            dogs and cats
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4663)
  AUTHORS   Sroithongkham,P. and Chanchaithong,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-DEC-2022) Department of Veterinary Microbiology,
            Chulalongkorn University, Henri-Dunant, Bangkok 10330, Thailand
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 19-NOV-2022
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Oxford Nanopore MinION and Illumina NextSeq
            550
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/31/2023 17:01:49
            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)                     :: 4,866
            CDSs (total)                      :: 4,748
            Genes (coding)                    :: 4,516
            CDSs (with protein)               :: 4,516
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 232
            CDSs (without protein)            :: 232
            Pseudo Genes (ambiguous residues) :: 0 of 232
            Pseudo Genes (frameshifted)       :: 66 of 232
            Pseudo Genes (incomplete)         :: 163 of 232
            Pseudo Genes (internal stop)      :: 45 of 232
            Pseudo Genes (multiple problems)  :: 40 of 232
            Pseudo Genes (short protein)      :: 3 of 232
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP115318.1.
            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..4663
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="CUVET18-789"
                     /isolation_source="urine"
                     /host="cat"
                     /db_xref="taxon:562"
                     /plasmid="pCUVET18-789.6"
                     /geo_loc_name="Thailand: Bangkok"
                     /collection_date="2018-05-30"
                     /collected_by="Pattrarat Chanchaithong"
     gene            complement(103..216)
                     /locus_tag="PCS95_RS24290"
                     /old_locus_tag="PCS95_24245"
     CDS             complement(103..216)
                     /locus_tag="PCS95_RS24290"
                     /old_locus_tag="PCS95_24245"
                     /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="replication initiation protein"
                     /protein_id="WP_071778980.1"
                     /translation="MHEPPVQSDRCVFSGNYRLESKPERHDKAPLAAATGN"
                     /name="replication initiation protein"
     gene            complement(1401..>1583)
                     /locus_tag="PCS95_RS24295"
                     /old_locus_tag="PCS95_24250"
                     /pseudo=""
     CDS             complement(1401..>1583)
                     /locus_tag="PCS95_RS24295"
                     /old_locus_tag="PCS95_24250"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007798797.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="NINE protein"
                     /name="NINE protein"
     gene            <1580..1822
                     /locus_tag="PCS95_RS24300"
                     /old_locus_tag="PCS95_24255"
                     /pseudo=""
     CDS             <1580..1822
                     /locus_tag="PCS95_RS24300"
                     /old_locus_tag="PCS95_24255"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003862821.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="cupin domain-containing protein"
                     /name="cupin domain-containing protein"
     gene            complement(1860..3002)
                     /gene="wzz(fepE)"
                     /locus_tag="PCS95_RS24305"
                     /old_locus_tag="PCS95_24260"
     CDS             complement(1860..3002)
                     /gene="wzz(fepE)"
                     /locus_tag="PCS95_RS24305"
                     /old_locus_tag="PCS95_24260"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010435173.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_process="GO:0009103 - lipopolysaccharide biosynthetic
                     process [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LPS O-antigen length regulator Wzz(fepE)"
                     /protein_id="WP_021544858.1"
                     /translation="MSAMDFKKNTDLDFPRYATPAVSTKEIDLLGLLDVLLAAKKRIVT
                     IVLAFAVVGLAIAFLIPQKWTSKAVITPAEQTQWNTLRQMMVTLQVLDVDAKVSRGDVF
                     NLFIKKFQSQSLLEEYMKTSPYVMSQLEGTEVDPLELHRAVVNIAEKMKATDNTQVKDA
                     DKAPYTSWTLSFTAPTAGDAQTVLEGYINYISRIVEQETMENIRNQITLKTKVVQQQLE
                     LDRVRLTNIHNTNLQRLNYSLEVANAAGIKKPVYSNGQAVKDDPDYSVALGADGIAQKL
                     QIEKNLKDVAELNADFQNREYYLTQLQKLSVEDVKLEPFRYQLSPSLPVKKDGPGKALI
                     VLLAGILGGLFACGSVLLREAMLSRNPLPEPITAVTPATE"
                     /name="wzz(fepE)"
     gene            3197..4178
                     /locus_tag="PCS95_RS24310"
                     /old_locus_tag="PCS95_24265"
     CDS             join(3197..3988,3990..4178)
                     /locus_tag="PCS95_RS24310"
                     /old_locus_tag="PCS95_24265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_048909999.1"
                     /ribosomal_slippage=""
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS5-like element IS5 family transposase"
                     /protein_id="WP_225899375.1"
                     /translation="MSHQLTFADSEFSSKRRQTRKEIFLSRMEQILPWQNMVEVIEPFY
                     PKAGNGRRPYPLETMLRIHCMQHWYNLSDGAIEDALYEIASMRLFARLSLDSALPDRTT
                     IMNFRHLLEQHQLARQLFKTINRWLAEAGVMMTQGTLVDATIIEAPSSTKNKEQQRDPE
                     MHQTKKGNQWHFGMKAHIGVDAKSGLTHSLVTTAANEHDLNQLGNLLHGEEQFVSADAG
                     YQGAPQREELAEVDVDWLIAERPGKVRTLKQHPRKNKTAHQHEYMKASIRAKVEHPFRI
                     IKRQFGFVKARYKGLLKNDNQLAMLFTLANLFRADQMIRQWERSH"
                     /name="IS5-like element IS5 family transposase"
     gene            complement(<4327..4458)
                     /locus_tag="PCS95_RS24315"
                     /old_locus_tag="PCS95_24270"
                     /pseudo=""
     CDS             complement(<4327..4458)
                     /locus_tag="PCS95_RS24315"
                     /old_locus_tag="PCS95_24270"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013578013.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="zinc-ribbon domain-containing protein"
                     /name="zinc-ribbon domain-containing protein"
     Typing          complement(100..485)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.373"
                     /coverage="90.0"
                     /evalue="1.04e-173"
ORIGIN
        1 tctttgaacc gtggtaactg gcttatgagg agcgcagtaa ccaaatctgt tctttcagtt
       61 tagccttaac aggcgcataa cttcaagact aactcctcta aatcagttac cagtggctgc
      121 tgccagtggc gctttgtcgt gtctttccgg cttggactca agtcgatagt taccggagaa
      181 gacgcagcgg tcggactgaa cggggggttc gtgcatacag tccagcttgg agcgaactgc
      241 ctacccggaa ctgagtgtca ggcgtggaat gagataaacg cggccataac agcggaatga
      301 caccggtaaa ccgaaaggca ggaacaggag agcgcacgag ggagccacca gggggaaacg
      361 cctggtatct ttaagtcctg tcgggtttcg ccaccactga tttgagcgtc agattctgtg
      421 atgcttgtca ggggggcgga gcctatggaa aaccggcaac gccgcggcct tttcttttgc
      481 ctctcgatcc tctctcattg cctgtgcctt aatgtctccg ttccctccgc tcgccgcagc
      541 cgaacgaccg agcgtagcga gtcagtgagc gaggaagcgg aatatccccg gacttatctt
      601 cggcaccgta cgcgccagtg ctgcattttt taatacgatg caggataggg ctaacgccgc
      661 aaagtgacgt cacctgacgt tcctggatta caaaggttaa agcagcggac aggaaatgtt
      721 ttgtgcccac agctatgctg gcttattcac aaaacagcgg gacaagatgt gtttttggag
      781 taccgccggc ccgctaaaga ctcctggtta gctcccgcat gtttgctatc tttttgctac
      841 cattttgcta cttttttgct atctccagag tcttctggtc tttcggttgc tatccttttg
      901 ctactttttt gctatcaaaa tgctacctct cccttcttgc aataaatgac caaggcacgt
      961 tagcgatgta tacatcgccg cgccgcaagg gtgccccttc cgaatcccgt tcatcactgc
     1021 gtgctgattc atccacgtta aatccgaccc ccttagcaat aaatccagcc atgcctgacg
     1081 gcctggccaa cgcctcacgg ccgcacagta aactgcacac ccgtgaggcg ttattcgtga
     1141 ggttcagtgg tgcttttggg cgtccagccg gattttagcc gctaaaatcc cggccatgca
     1201 tgtgtgtgca tagccatgca gacgcgccag aatcatcagg cgcgtttttt cacgatatag
     1261 gtacagggaa gtgtcggaaa caggcaggaa gacccagaaa cgccctgaga gcctctcagg
     1321 cggtgcacgc aacggatgtt atggtaaatc tgcctcacag actggtacaa aaaaagcccg
     1381 aagggctttt ttgctatgag ttagccatat tttcttgcga atttttcatc ggaatcgcat
     1441 agataaataa taaactcaat aaacgcgatg atcgcgggta tgaatgtcca gcaaaaaatt
     1501 agatacagga atccctgtcc tattttacct aagtaaaatt tatgtacgcc aaatccacca
     1561 aggaagaatg ctaagaaaga tgatggcggt ggaggtcaat tttgagcagg gtgcgattgg
     1621 cccgatgcac aatcacccgc atgaacagct tacctatgtg ctctccgggg agttcgagtt
     1681 tacgataggt gaagaaaagc agatcgtgac ggcgggcgat acgctctata aagcgccgca
     1741 cgtgatgcac ggctgcattt gcctgaagcc cggcaccctt ctggatacct ttacgccggt
     1801 gcgcgacgat ttcctgaaat aaaaaaaggc gctgaatcag cgccttttta atatcgtcgt
     1861 tactctgttg ctggcgttac ggccgttatc ggctctggca acggattacg cgagagcatt
     1921 gcctcacgca gcagcacgct gccgcaggca aacaggccgc ccagaatccc tgccagcagc
     1981 acaatcaggg ctttgcccgg accgtctttt ttcaccggca gtgacggtga aagctgatac
     2041 ctgaagggtt caagcttcac gtcttccacg gacagttttt gcaactgagt cagatagtat
     2101 tcacggttct ggaaatccgc attcagctcg gccacgtcct tcagattctt ttcaatctgc
     2161 agcttttgcg caataccgtc agcacccagc gccacggagt agtcaggatc gtcttttacc
     2221 gcctgtccgt tgctgtaaac cggcttctta atgcctgccg cgttcgccac ttccagcgaa
     2281 tagttgaggc gctgcaggtt ggtgttgtgg atattggtca gacgcacgcg atccagctcc
     2341 agctgctgct gaacgacttt cgttttcagc gtgatctggt tacggatatt ttccatcgtc
     2401 tcctgctcaa caatgcggga gatatagttg atgtaacctt ccagaaccgt ctgcgcgtct
     2461 cccgccgtcg gggcggtaaa gctcagcgtc catgaggtat acggcgcttt gtctgcgtct
     2521 ttaacctgcg tgttatctgt cgctttcatt ttctcagcaa tattcaccac cgcgcgatgc
     2581 agctccagcg ggtctacctc ggtgccttcc agctgagaca tcacgtacgg ggaggttttc
     2641 atgtactctt cgagcagcga ctgcgactga aactttttga tgaacaggtt aaacacgtct
     2701 ccacggctca ccttcgcgtc gacgtccagc acctgcagcg tcaccatcat ctggcgcagc
     2761 gtgttccact gcgtctgctc ggccggcgtg atcacggctt tactggtcca tttttgcggg
     2821 attaaaaacg caatggccaa ccctactacg gcgaacgcca ggacgatcgt cacaatacgt
     2881 tttttggctg ccagaagtac gtctaacaac cccaggagat ctatctcttt ggtgcttacc
     2941 gccggagtgg cataacgggg aaaatcgagg tccgtgtttt tcttgaaatc catcgctgac
     3001 ataaccgttc ttctttttgg agcgcagtaa atttctgcct gattggttgc agtggtcgga
     3061 tgatacaaga aagtaagaat aatctgaacg ccagattgat ctatctgtag accgactatc
     3121 agatttaggg aaggtgcgaa caagtccctg atatgagatc atgtttgtca tctggagcca
     3181 tggaacaggg ttcatcatga gtcatcaact taccttcgcc gacagtgaat tcagcagtaa
     3241 gcgccgtcag accagaaaag agattttctt gtcccgcatg gagcagattc tgccatggca
     3301 aaacatggtg gaagtcatcg agccgtttta ccccaaggct ggtaatggcc ggcgacctta
     3361 tccgctggaa accatgctac gcattcactg catgcagcat tggtacaacc tgagcgatgg
     3421 cgcgatcgaa gatgctctgt acgaaatcgc ctccatgcgt ctgtttgccc ggttatccct
     3481 ggatagcgcc ttgccggacc gcaccaccat catgaatttc cgccacctgc tggagcagca
     3541 tcaactggcc cgccaattgt tcaagaccat caatcgctgg ctggccgaag caggcgtcat
     3601 gatgactcaa ggcaccttgg tcgatgccac catcattgag gcacccagct cgaccaagaa
     3661 caaagagcag caacgcgatc cggagatgca tcagactaag aaaggcaatc agtggcactt
     3721 tggcatgaag gcccacattg gtgtcgatgc caagagtggc ctgacccaca gcctagtcac
     3781 caccgcggcc aacgagcatg acctcaatca gctgggtaat ctgctgcatg gagaggagca
     3841 atttgtctca gccgatgccg gctaccaagg ggcgccacag cgcgaggagc tggccgaggt
     3901 ggatgtggac tggctgatcg ccgagcgccc cggcaaggta agaaccttga aacagcatcc
     3961 acgcaagaac aaaacggccc atcaacatcg aatacatgaa agccagcatc cgggccaagg
     4021 tggagcaccc atttcgcatc atcaagcgac agttcggctt cgtgaaagcc agatacaagg
     4081 ggttgctgaa aaacgataac caactggcga tgttattcac gctggccaac ctgtttcggg
     4141 cggaccaaat gatacgtcag tgggagagat ctcactaaaa actgggaata acgccttaaa
     4201 tggcgaagaa acggtctaaa taggctgatt caaggcattt acgggagaaa aaaatcggct
     4261 caaacatgaa gaaatgaaat gactgagtca accgagaaga atttccccgc ttattcgcac
     4321 cttccctaat agcgcggctg cgattctact tttttcacct gaacctgaag aggcgtttgt
     4381 ggctccgcag tgtgggcatg actttgctgt ttcgtgtatt tccttgccgc atcctcggca
     4441 gtaaaccatt gaactcattt tttatcctcg agcttatttt tagttgggat gcataatatc
     4501 cgatgtttta taacgatatg catcctatat gctcgggtgg gatagatttc cattatggtg
     4561 aaggatcttc ttgagatcct ttctgtagcg tcgtaatctc ttgctcagta aacgaaaaaa
     4621 ccgcccagca aggcggtttt tcgaaggttc tcagagctgc aac
//
