LOCUS       NZ_CP148450             4788 bp    DNA     circular CON 05-APR-2024
DEFINITION  Escherichia coli strain Z1323CEC0010 plasmid pZ1323CEC0010-6,
            complete sequence.
ACCESSION   NZ_CP148450
VERSION     NZ_CP148450.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40441577
            Assembly: GCF_037572835.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4788)
  AUTHORS   Chae,J.-C., Oh,J.Y., Jeong,J.H. and Kwak,S.M.
  TITLE     Complete genome sequence of Escherichia coli isolated from humans,
            companion animals, industrial animals and wild animals
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4788)
  AUTHORS   Chae,J.-C., Oh,J.Y., Jeong,J.H. and Kwak,S.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-MAR-2024) Division of biotechnology, Jeonbuk National
            University, kobongro, Iksan 54596, South Korea
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 127X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037572835.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 20:28:08
            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)                     :: 5,592
            CDSs (total)                      :: 5,462
            Genes (coding)                    :: 5,150
            CDSs (with protein)               :: 5,150
            Genes (RNA)                       :: 130
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 97
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 312
            CDSs (without protein)            :: 312
            Pseudo Genes (ambiguous residues) :: 0 of 312
            Pseudo Genes (frameshifted)       :: 93 of 312
            Pseudo Genes (incomplete)         :: 220 of 312
            Pseudo Genes (internal stop)      :: 57 of 312
            Pseudo Genes (multiple problems)  :: 55 of 312
            Pseudo Genes (short protein)      :: 4 of 312
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP148450.1.
            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..4788
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="Z1323CEC0010"
                     /host="Chicken"
                     /db_xref="taxon:562"
                     /plasmid="pZ1323CEC0010-6"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-02-27"
     gene            37..198
                     /locus_tag="WHU12_RS27910"
                     /old_locus_tag="WHU12_27910"
     CDS             37..198
                     /locus_tag="WHU12_RS27910"
                     /old_locus_tag="WHU12_27910"
                     /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_071596883.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHALTPLAAATGNRISRARFI
                     QMLTEFLK"
                     /name="replication initiation protein"
     gene            complement(390..1346)
                     /locus_tag="WHU12_RS27915"
                     /old_locus_tag="WHU12_27915"
     CDS             complement(390..1346)
                     /locus_tag="WHU12_RS27915"
                     /old_locus_tag="WHU12_27915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014640333.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0009036 - type II site-specific deoxyribonuclease
                     activity [Evidence IEA]"
                     /GO_process="GO:0009307 - DNA restriction-modification
                     system [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II restriction endonuclease"
                     /protein_id="WP_224985182.1"
                     /translation="MKKLSSRYKRLFFMQRLSPGEFKTLISKERKSHFITPFALVYKTF
                     CDLGYDQKNSDYFLNNPSEYIIAMRKNCWKEFEPFEKEFTTRMLSYLIDEERIKDMSPY
                     DAIRDFTMEYPTHIYDLALSNTQSRRSRAGKEFESILELLMMGAGIPVDVQGAIGKSFF
                     QKNQIGKLVDLVMPGVVQYTSNKRNTMLISAKTTLRERWQEVPEEVNRTGIREMYLATL
                     DDSFSEETINILYEANVVVVTTIENKNFKYKNNNRVLTFEDMLQSAMELSRKWNNVSYT
                     DSEKEEIQQSILKQIEKYSDFPYVVNYYRNRLSALVD"
                     /name="type II restriction endonuclease"
     gene            1417..2556
                     /gene="dcm"
                     /locus_tag="WHU12_RS27920"
                     /old_locus_tag="WHU12_27920"
     CDS             1417..2556
                     /gene="dcm"
                     /locus_tag="WHU12_RS27920"
                     /old_locus_tag="WHU12_27920"
                     /EC_number="2.1.1.37"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000131511.1"
                     /GO_function="GO:0003886 - DNA
                     (cytosine-5-)-methyltransferase activity [Evidence IEA]"
                     /GO_process="GO:0006304 - DNA modification [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA (cytosine-5-)-methyltransferase"
                     /protein_id="WP_000131512.1"
                     /translation="MTDNIAATIKGKRERLHMTQKEFADALGLSKYGDRTIRRWERGET
                     KPTGAELKAVMDFPDTPPYPNNENGRYRMIDLFAGIGGTRLGFHQTNAVNVVFSSEWDK
                     FAQKTYHANYGDFPDGDITKIDEKDIPDHEILVGGFPCVAFSQAGLKKGFNDTRGTLFF
                     DIARIIKEKKPHAFLLENVKNLLGHDKGRTFSIIKNTLEELNYTVYYNIFAAKDFGVPQ
                     NRERIYIVGFNKEKVRNHEHFTFPTPLKTKTRVGDILEKSVDNKYTLSDALWNGHQRRK
                     LVNAAAGKGFGYGLFNENSPYTNTISARYYKDGSEILIEQKGSNPRKITPREASRLQGF
                     PSDFIIPVSDTQAYKQFGNSVAVPVINAIAEKIISTLDS"
                     /name="dcm"
     gene            complement(2695..3138)
                     /locus_tag="WHU12_RS27925"
                     /old_locus_tag="WHU12_27925"
     CDS             complement(2695..3138)
                     /locus_tag="WHU12_RS27925"
                     /old_locus_tag="WHU12_27925"
                     /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_001605388.1"
                     /translation="MTSGIFLSREDLMLLSDQAKEEVLALATGDSVSGVYEESEDGPTD
                     LSSLQAERLVRGLSDKSRTVLKAILESEDGERGFWCKSLAKELGFDVSELSGVWSGLTR
                     RTRTVSDDSEAYLISWAWDDDRDDYYGTLHPTTYRNCKKAMNF"
                     /name="hypothetical protein"
     gene            complement(3527..3850)
                     /gene="mobA"
                     /locus_tag="WHU12_RS27930"
                     /old_locus_tag="WHU12_27930"
     CDS             complement(3527..3850)
                     /gene="mobA"
                     /locus_tag="WHU12_RS27930"
                     /old_locus_tag="WHU12_27930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            4135..4329
                     /locus_tag="WHU12_RS27935"
                     /old_locus_tag="WHU12_27935"
     CDS             4135..4329
                     /locus_tag="WHU12_RS27935"
                     /old_locus_tag="WHU12_27935"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001712891.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENSTGV"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3860..4100)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.765"
                     /coverage="100.0"
                     /evalue="2.15e-118"
     Typing          5..378
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.463"
                     /coverage="85.0"
                     /evalue="1.12e-89"
     Typing          4373..4788
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.619"
                     /coverage="95.0"
                     /evalue="3.77e-169"
     Typing          complement(3531..3850)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.36e-62"
ORIGIN
        1 ggcccggtgt aggtcgttcg ctccaagctg ggctgtgtgc acgaaccccc cgttcagccc
       61 gaccgctgcg ccttatccgg taactatcgt cttgagtcca acccggtaag acacgcctta
      121 acgccactgg cagcagccac tggtaaccgg attagcagag cgagatttat ccagatgctt
      181 acagagttct tgaagtgatg gcctaactac ggctacactg gaaggacagt atttggtatc
      241 tgtgctctgc tgaagccaga ttacctcggt tagataatct gccaggatta gctaaccttc
      301 gaaaaaacca cctgccaggg tggttttttc gtttacaggt ccaagattac gcgcagaaaa
      361 aaaggatctc aagagatcct tttagttttt tagtcaacaa gagcactaag cctatttcta
      421 taataattaa caacataagg gaaatcacta tatttttcta tttgttttaa tattgactgt
      481 tgaatttcct ctttttcaga gtctgtgtaa cttacattat tccactttct tgataattcc
      541 attgctgact gtagcatatc ttcaaaggtt agcaccctat tattattttt atatttgaaa
      601 tttttatttt ctatcgtcgt tacaacgacc acattagcct cgtataatat atttattgtc
      661 tcctcgctaa aagaatcatc tagtgtagct agatacattt ctctaattcc tgttctatta
      721 acctcttcag gtacttcttg ccatcgctcc ctcagcgttg ttttagcgga aatcaacatt
      781 gtatttcttt tgttagatgt gtactggact acacctggca taacaagatc tacaagttta
      841 cctatttggt ttttttgaaa aaatgacttc ccaatagccc cctgcacatc aacaggaatt
      901 cctgccccca tcattaatag ctcaagaata gactcaaact cttttcctgc cctgctacgt
      961 ctggattgag tgttagacag tgccaaatca tatatgtgtg tagggtattc catcgtaaaa
     1021 tcacgaatgg catcataagg actcatatct tttattcttt cttcatcaat aagatatgat
     1081 aacattcttg ttgtgaattc tttttcaaat ggttcaaatt ctttccaaca gttttttctc
     1141 attgcaatta tatattcact tggattattc aaaaaataat cactattttt ttgatcatac
     1201 cctaaatcac aaaatgtttt ataaaccaaa gcaaatggcg taataaaatg cgactttctc
     1261 tctttagaaa ttagagtttt aaattcacca ggactcaatc tttgcataaa aaataacctt
     1321 ttatatctac ttgaaagttt tttcatgcac gttcataatt ggaatcaaaa caggacaaat
     1381 tgtcctaaaa ccaacactta attctggtag acatgcatga ctgataatat cgcagcaaca
     1441 atcaaaggaa aaagagaaag acttcatatg actcaaaaag agtttgcaga cgcccttggt
     1501 ctttcaaaat atggagacag aaccataaga agatgggagc gcggggaaac aaaacctact
     1561 ggggcggaac taaaagcagt tatggacttt ccagacacac caccttaccc aaacaacgag
     1621 aatggcagat atcgcatgat cgatttattt gctggaatcg gtggaaccag acttggattt
     1681 catcaaacta acgctgtaaa tgttgttttt tccagcgaat gggataagtt tgctcaaaag
     1741 acatatcatg caaattatgg tgatttccct gatggggaca taacaaaaat cgatgaaaaa
     1801 gatattcctg atcatgaaat tcttgtcggt gggtttcctt gcgtagcatt ctctcaagca
     1861 gggctcaaaa aaggatttaa tgatacaaga ggaactttgt tttttgatat agcaaggata
     1921 ataaaggaaa aaaaacctca tgctttttta cttgaaaatg taaaaaactt gctaggacat
     1981 gataaaggta gaactttttc aataataaaa aacacacttg aagaattgaa ttacactgtg
     2041 tattacaata tcttcgctgc aaaagacttt ggtgttccac aaaatagaga acgcatatac
     2101 attgtaggct ttaataaaga aaaagtaaga aatcatgaac attttacttt tccaacccca
     2161 ttaaaaacaa aaacaagagt tggagatatt cttgaaaaga gcgtagacaa taaatatacg
     2221 ctatcagatg cgctctggaa tggacaccaa cgcaggaaac ttgtaaatgc agcagccggt
     2281 aaaggctttg ggtatggttt atttaatgaa aatagcccat atactaatac cataagtgcg
     2341 aggtactata aagatggtag cgaaatatta atagagcaaa aaggaagtaa cccaagaaaa
     2401 ataactccgc gggaagcgtc aagacttcaa gggtttccta gtgattttat tatccctgta
     2461 tcggatacac aggcttataa gcaatttggg aattcagtcg cagtccctgt tatcaatgca
     2521 atagcagaaa aaatcatatc gaccttagat tcataaacta agtcataagg acacaatgcg
     2581 acccagaatc caattccccc cccatatgga tttaccataa cgtctcacta cacgaaccaa
     2641 tgaaaaaagc ccgcacatgg cgggctcaca gggaaagtat cacagcgaga acaatcaaaa
     2701 gttcatagct ttcttgcagt tgcgataggt tgttggatgt agcgttccat agtaatcatc
     2761 acggtcatca tcccaagccc agctaatcaa ataagcctca gaatcatcac ttaccgtgcg
     2821 agttctgcgt gtaagccctg accagacacc tgaaagctca gagacatcaa aaccaagctc
     2881 ctttgcgagg ctcttgcacc agaatcctcg ctcaccatcc tcgctttcaa gaatagcttt
     2941 cagcactgtt cgcgacttat cacttaaacc acgaacaagc ctttctgcct gaagcgagga
     3001 aagatcagta ggcccatctt ccgactcctc ataaacacca gaaaccgaat ccccagtagc
     3061 caatgccagc acttcttctt ttgcttggtc tgataacaac atcaaatctt cacgggataa
     3121 gaaaatacca ctagtcatga aacactccat tgtcttgtta agataaaagg agaataaaca
     3181 tagacaagat agttgtcaac aagacaagtg acaagtcaat acaactaaca tcaattaaca
     3241 gctagttgtg tttgatttac cgcattaact gggttgcgat agtgagaggt caacactcaa
     3301 cagcccggat ttaccataac gtcgcattac gcgcaccgcc aaaacgcgct gaacgcgatt
     3361 ctgacgcaga caccgcaaaa agagatgttt tccccggggt aaaccggaaa aatgcgtcag
     3421 gatcgctttc agctcactgc atagctatgc atgaaagtga atggcgatcg gtttgggggc
     3481 ttacggcgtt cataccgtct gttttcgaca gtttctctcc gggaagctaa tctgccataa
     3541 gcctggataa cagggcacgg tgatactccg taatagcgat cagcacctcc gcatactccc
     3601 tgtccccgac acgcttgccg tcgataaaga gttttttctg caacgccccc agtcgcataa
     3661 cttctttcag cacccggtca tcagtcagtg agttaacttt cttaccgaga gctgccgccc
     3721 gtaaaaaacc ggaaacggtc ttgccgcatt cagcagccct ttttctgatt tcctggtctt
     3781 cttctgccgt cagacgaaca gggcgactga tagcccgcct gcgcgtatta cttccacttc
     3841 gttttgtcat aaaacatggc tccgtatctg acatggggtg tcggggcgaa gccctgacca
     3901 gggtaattgt aatagcgcgc atgtatgcgc ggtataacaa ttacacatcc tgtcctgtca
     3961 gcaagttcga attaccgaca aaggcacggc agttttttgg cagtgacagt attgtcaggc
     4021 agaaatgccc gtcaaagagt cagacggcag aatactggcg gcaaaactgt cgaaaagtgg
     4081 tacgcgatat aatcacataa cgcagatgac agacagaacg gagaaaacag aaagatgaac
     4141 aagcagcagc aaactgtact caacatggcg ggattcataa aaagccagag cctgacactg
     4201 ctcgaaaagc tggacgcact cgatgccgac gaacaggccg ccatgtgtga gaagctgcac
     4261 gaactcgcgg aagaactcca gaacagcata cagacacgct ttgaagcgga aaatagcacc
     4321 ggggtataac agtatatccg gcaccagata ggatacagaa tggtatacct gtgcgtaagg
     4381 agaaaatgct acatcaggca ctcttccgct tcctcgctca ctgactcgct acgctcggtc
     4441 gttcgactgc ggcgagcggt atcagctcac tcaaagacgg taatgaggtt atccacagaa
     4501 tcaggggata acgccaaaag aaacatgtga gcaaaaaaca agagcccgaa aaaggccgca
     4561 ccggtggcgt ttttccatag gctccgcccc cctgacgagc atcacaaaaa tcgacgctca
     4621 agtcagaggt ggcgaaaccc gacaggacta taaagatacc aggcgtttcc ccctggaagc
     4681 tccctcgtgc gctctcctgt tccgaccctg ccgcttaccg gatacctgtc cgcctttctc
     4741 ccttcgggaa gcgtggcgct ttctcatagc tcacgctgtt ggtatctc
//
