LOCUS       NZ_CP148511             5270 bp    DNA     circular CON 05-APR-2024
DEFINITION  Escherichia coli strain Z1323CEC0001 plasmid pZ1323CEC0001-5,
            complete sequence.
ACCESSION   NZ_CP148511
VERSION     NZ_CP148511.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40441568
            Assembly: GCF_037576255.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5270)
  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  JOURNAL   Unpublished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 5270)
  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                   :: 115X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037576255.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 20:25:33
            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)                     :: 5,818
            CDSs (total)                      :: 5,691
            Genes (coding)                    :: 5,374
            CDSs (with protein)               :: 5,374
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 317
            CDSs (without protein)            :: 317
            Pseudo Genes (ambiguous residues) :: 0 of 317
            Pseudo Genes (frameshifted)       :: 107 of 317
            Pseudo Genes (incomplete)         :: 205 of 317
            Pseudo Genes (internal stop)      :: 51 of 317
            Pseudo Genes (multiple problems)  :: 44 of 317
            Pseudo Genes (short protein)      :: 4 of 317
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP148511.1.
            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..5270
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="Z1323CEC0001"
                     /host="Chicken"
                     /db_xref="taxon:562"
                     /plasmid="pZ1323CEC0001-5"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-02-23"
     gene            complement(94..252)
                     /locus_tag="WHU28_RS28975"
                     /old_locus_tag="WHU28_28970"
     CDS             complement(94..252)
                     /locus_tag="WHU28_RS28975"
                     /old_locus_tag="WHU28_28970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_071791734.1"
                     /translation="MHEPPVQPDCCALPGNYRLESNPVRHALTPLAAAIGNWTRWIEIL
                     RVLEVVA"
                     /name="replication initiation protein"
     gene            complement(921..1112)
                     /locus_tag="WHU28_RS28980"
                     /old_locus_tag="WHU28_28975"
     CDS             complement(921..1112)
                     /locus_tag="WHU28_RS28980"
                     /old_locus_tag="WHU28_28975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_000165985.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1177..1500
                     /locus_tag="WHU28_RS28985"
                     /old_locus_tag="WHU28_28980"
     CDS             1177..1500
                     /locus_tag="WHU28_RS28985"
                     /old_locus_tag="WHU28_28980"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000956000.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGTR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1709..>2140
                     /locus_tag="WHU28_RS28990"
                     /old_locus_tag="WHU28_28985"
                     /pseudo=""
     CDS             1709..>2140
                     /locus_tag="WHU28_RS28990"
                     /old_locus_tag="WHU28_28985"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            2178..2696
                     /locus_tag="WHU28_RS28995"
                     /old_locus_tag="WHU28_28990"
     CDS             2178..2696
                     /locus_tag="WHU28_RS28995"
                     /old_locus_tag="WHU28_28990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_001749510.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLGESVSEAVTSNE
                     TKIRDAIALFTASTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQTNLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            2703..2936
                     /locus_tag="WHU28_RS29000"
                     /old_locus_tag="WHU28_28995"
     CDS             2703..2936
                     /locus_tag="WHU28_RS29000"
                     /old_locus_tag="WHU28_28995"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_004026237.1"
                     /translation="MTELEIHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            3336..3980
                     /locus_tag="WHU28_RS29005"
                     /old_locus_tag="WHU28_29000"
     CDS             3336..3980
                     /locus_tag="WHU28_RS29005"
                     /old_locus_tag="WHU28_29000"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529705.1"
                     /GO_function="GO:0004518 - nuclease activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Eco29kI family restriction endonuclease"
                     /protein_id="WP_011017202.1"
                     /translation="MHNKKFDRSEHVYRNDSFLELIKDAVRFFSGTPVHSLPPPERFQG
                     AGVYALYYTGHYSLYDEYSRINRLAYNLPIYVGKAVPAGWRQSRISDHETRAGSELSNR
                     IREHSRNIAKTSNLNLCDFSCRFVIFEATGSDMISTVEAALIKIYKPLWNTVVDGFGNH
                     TPGAGRFAQAKSDWDVIHPGREWAEKCTGVHSEPYFIEERIKQYFSKSNFT"
                     /name="Eco29kI family restriction endonuclease"
     gene            3980..5128
                     /locus_tag="WHU28_RS29010"
                     /old_locus_tag="WHU28_29005"
     CDS             3980..5128
                     /locus_tag="WHU28_RS29010"
                     /old_locus_tag="WHU28_29005"
                     /EC_number="2.1.1.37"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529706.1"
                     /GO_function="GO:0003886 - DNA
                     (cytosine-5-)-methyltransferase activity [Evidence IEA];
                     GO:0008168 - methyltransferase activity [Evidence IEA];
                     GO:1904047 - S-adenosyl-L-methionine binding [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 methyltransferase"
                     /protein_id="WP_011017203.1"
                     /translation="MRSLEIFSGAGGLAKGLELAGFQHVGFVELNKHACDSLRLNFDEE
                     KVFQGDIKNYDLSSIDKIDIVAGGPPCQPFSLGGKHKAHDDSRDMFPFAIKAIEVLQPK
                     AFIFENVKGLLRKSFADYFEYIILRLTYPCLSLSNVSDWRIHLDALRKARKDKHCGCTY
                     DVSFKLINAADYGVPQIRERVIIVGVRSDLNKKWSFPSVTHTQEKLLWEQHVTGDYWRK
                     HNIDAVIDKGISERLMKRFGIFPPSGKSWVTVRDALKNVPQPYESHGIGDHIFKDGARV
                     YPGHTGSYIDLPSKTLKAGAHGVPGGENMIRYEDGTVRYFTVYEGKLLQTFPREFLIAG
                     AWGEAMRQIGNAVPVLLAQKIGQQLYNLLNEEVEPLLCSNFN"
                     /name="DNA cytosine methyltransferase"
     Typing          751..836
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.58e-38"
     Typing          complement(181..726)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.192"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          1491..3040
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.565"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgccggaatc aagagctacc aactcttttt cccgaaggta actggcttgg tggagcgcag
       61 ataccaaata ctgtccttct agtgtagcct cagttaggcc accacttcaa gaactcttaa
      121 tatctcaatc caccttgtcc agttaccaat ggctgctgcc agtggcgtta aggcgtgtct
      181 taccgggttg gactcaagac gatagttacc gggcaaggcg cagcagtcgg gctgaacggg
      241 gggttcgtgc acacagccca gcttggagcg aacgacctac accgaactga gataccaaca
      301 gcgtgagcta tgagaaagcg ccacgcttcc cgaagggaga aaggcggaca ggtatccggt
      361 aagcggcagg gtcggaacag gagagcgcac gagggagctt ccagggggaa acgcctggta
      421 tctttatagt cctgtcgggt ttcgccacct ctgacttgag cgtctgtttt tgtgatgctc
      481 gtcagggggg cggagcctat ggaaaaacgc cagcggcgtg gccttttccg ggttcttgtt
      541 ttttgctcac atgtttcttt tggcgttatc ccctgattct gtggataacc gcattaccgt
      601 ctttgagtga gctgataccg ctcgccgcag ccgaacgacc gagcgtagcg agtcagtgag
      661 cgaggaagcg gaagagcgcc tgatgcggca ttttctcctt acgcatctgt gcggtatttc
      721 acaccgtata tggtgctctt ttcttattat ctgcactgat gccgcatggt taagccagta
      781 tacactccgc tatcgctacg tgactgggtc agggctgcgc cccgacaccc gctaaaacct
      841 gctgacgcgc cctgacgggc ttgtctgctc ccggcattcg ctcacagaca agctgtgacc
      901 gtctccggga gctgcatgtg tcagaggttt tcaccgtcat ccccgaaacg tgcgaggcag
      961 ctgcggtaaa gctcatcggc gtggtcgtga agcgattcac agatgtctgc ctgttcatcc
     1021 gcgtccagtt cgttgagctt ttccagcagc gttaatgtct ggcttctgat aaagcgggcc
     1081 atgttaaggg cggttttttc ctgtttagtc actgatgcct ccgtgtaagg ggggatttct
     1141 gttcatgggg taatgatacc gatgaaacgc gagaggatgc tcacgatacg ggttactgat
     1201 gatgaacatg cccggttact tgaacgctgt gagggtaaac aactggcggt atggatgcgg
     1261 cgggtctgcc tgggtgagcc ggttgcccgt tccggaaaac tgccgacact ggcaccgccg
     1321 ttactgcgtc agctggccgc catcggaaat aacctgaatc agacagcccg taaggtgaac
     1381 agcgggcagt ggtcttccgg tgaccgggtt caggtggtgg ccgcactgat ggccatcggg
     1441 gatgagctgc gccggctgcg tctggccgtc agggaacagg ggacgcggga tgatagttaa
     1501 gtttcatgcc aggggaaaag gtggtggcag tggtccggtt gattacctgc tgggaaggga
     1561 gcgtaaccgg gaaggggcaa cggtgcttca gggtaatccg gaagaagtac gggaactcat
     1621 cgatgccacg ccatttgcga agaaatacac gtccggtgtg ctgtcgttcg cggagaagga
     1681 gctgccaccg ggaggacgtg aaaaagtgat ggcgagcttt gagcgtgtac tgatgcccgg
     1741 tctcgaaaaa aatcagtaca gcatcctgtg ggtggagcac caggacaagg gacggcttga
     1801 gctgaatttt gtcattccga acatggagct acagaccgga aaacgtctcc agccgtacta
     1861 cgaccgcgca gacaggccga gaattgatgc ctggcagacg ctggtgaatc accattacgg
     1921 actgcatgac cccaacgccc cggagaaccg ccggacgctg acccttcctg ataacctgcc
     1981 ggaaacgaaa caggcacttg ctgagagcgt tacacgcggt atagacgcac tttaccatgc
     2041 cggagagata aaaggccgtc aggatgtgat tcaggcgctc acagaggcgg ggcttgaagt
     2101 ggtcagggtg acgcgaagca gtatcagcat tgcagacccg aacggcggga agaatatcag
     2161 gctgaaagga gcattttatg agcaatcttt tacagacggg cgcggagttc gagaaaaagc
     2221 tgaaagagag agccgaatct acagagaaaa tgctgaacga cgagttcagg aagctcggcg
     2281 agtctgtcag cgaggctgtg acctcaaacg agacgaaaat cagagacgct atagccctgt
     2341 tcacagcctc gacagagaaa tcgctggaaa aacaccggga aggggtgaaa gaggcgatga
     2401 tgcagcacag gaaggacgtg ttaaagctgg cagggaatac gggcatgatg ttactgggga
     2461 tagtctttct cctgtttacc gcgagtggcg ggacgctctg gtatcttggc ggacggatac
     2521 agacgaacct ggaagaaatc aggaagcagg aagagacatt gcagaaactg aacgcgaaga
     2581 catggggcgt ggagtttgtg caggacggga acaggaaatt ccttgtcctt ccgtacggga
     2641 aatcagcgga ggtgattccc tttcagggga aagagtgggt acatctgaag gagtgacaca
     2701 gagtgacaga gctggaaata catttgctga acgccttaga gcagctgcaa caggactata
     2761 tgcagcggct gagcgaatgg gagagcgcct tcgtggaatt gcagaagatg ttttcgctta
     2821 cgcaacggga caacgcgatg ctgaacgagc gggtcatgca gttgagtcag caggtgcagc
     2881 acttgagcga gcagacagaa cgcttgagcc agttatacag cgagaactgg agataagaga
     2941 ggaacggctg atacaggagc gcgaacatgc gttatccctg gaacgggagc gtcagccgga
     3001 aatacaggaa cgcacgctgg atggtccttc gctgggatgg tgaaaccatg aaaaatggca
     3061 gcttcagtgg attaagaggg gttaatgtgg cctgtaccat ctggttgcat aggtattcat
     3121 gcggttaaaa tttatcaggc gcgatcgcgg cagtttttcg ggtggtttgt tgccattttt
     3181 acctgtctgc tgccgtgatc gcgctgaacg cgttttagcg gtgcgcgtaa tgcgacgtta
     3241 tggtaaatgc gtatggtttt gggtatcagc tttatgatcg tatcataggt gatgttgagt
     3301 aggagtgtta atataaaaac ctttcggaaa acataatgca caataagaaa tttgatagat
     3361 ctgagcatgt ttatagaaat gactctttcc tagagttaat aaaagatgcc gttcgttttt
     3421 ttagtggtac gcctgttcat tcattaccac caccggaacg gtttcaaggt gctggggtgt
     3481 atgctcttta ctatacaggg cattattcat tatatgatga atactctcgt ataaataggt
     3541 tggcatataa ccttcctatt tatgttggca aggctgttcc tgctggttgg cgtcagtcta
     3601 gaattagtga tcatgaaact agggctggtt ctgaactatc taatagaatt agagaacata
     3661 gccgaaatat agcaaaaaca tcgaatctaa atttgtgtga tttttcatgt cgctttgtta
     3721 tatttgaggc tacggggtct gatatgatta gtacagttga ggccgctctt attaaaattt
     3781 ataagccttt gtggaataca gttgttgatg gctttggaaa tcatacccct ggtgccgggc
     3841 gatttgcgca agctaaatct gattgggatg taatacatcc tggcagggag tgggctgaga
     3901 aatgtacagg tgttcattct gagccatact ttattgagga gagaattaaa cagtattttt
     3961 ctaagagtaa ttttacataa tgagatcatt agagattttt tcaggagccg gcggtttggc
     4021 taaaggtcta gagttggcag gatttcagca tgtaggattt gttgagttaa acaagcatgc
     4081 atgtgattct ttgcgactta attttgatga ggagaaggta tttcagggag atattaaaaa
     4141 ttatgacctt tcatctatag ataaaataga tattgttgct ggcgggcctc cctgccaacc
     4201 attttcattg ggcggaaaac ataaagctca tgatgactct agggatatgt tcccatttgc
     4261 aataaaagca attgaagtat tgcaaccaaa agcttttatt tttgaaaatg ttaaagggtt
     4321 gcttagaaaa tcatttgcgg attattttga atacataatt cttcgtttga cttatccttg
     4381 tttatcgtta agtaatgtaa gtgattggag aatacatcta gatgcattaa gaaaagctcg
     4441 caaggataaa cactgtgggt gtacatatga tgtcagtttt aaattgatca atgcagctga
     4501 ttatggagtt ccacaaatta gagaacgggt cataattgtt ggtgttcgaa gtgatttgaa
     4561 taaaaaatgg tcttttccaa gcgtaacgca tactcaagaa aaattactgt gggaacagca
     4621 tgttactggt gactattggc gaaagcataa tattgatgcg gttatagata aaggtatttc
     4681 tgagcgttta atgaaacgtt ttggtatttt ccccccatcg gggaaaagct gggttactgt
     4741 tagggacgca ttaaagaatg ttcctcaacc atatgagtca catggtattg gagatcatat
     4801 ctttaaagat ggcgctcgag tttatcctgg tcatactgga agttatatcg atttgccttc
     4861 aaaaacactt aaggctggcg ctcatggcgt acctggaggt gaaaatatga ttaggtatga
     4921 ggatgggact gttcgttatt ttacggttta tgaagggaag cttcttcaga cttttcctcg
     4981 agagtttctg attgcaggag cttgggggga ggctatgagg cagattggta atgcagttcc
     5041 tgtgttgcta gctcagaaga taggacagca attgtataac ttattgaatg aagaggttga
     5101 gcctttattg tgctctaact tcaattaaaa gtttgtgtct ctatggtggt gatacagcca
     5161 tagaggcaat ttgcaaaaaa agatcaaagg atcttcttga gatccttttt ttctgcgcgt
     5221 aatctgctgc ctgtaaacaa aaaaaccacc gctaccaacg gtggttcgtt
//
