LOCUS       NZ_CP096830             4081 bp    DNA     circular CON 10-JUN-2024
DEFINITION  Escherichia coli strain PM4-5 plasmid pPM4-5-4k, complete sequence.
ACCESSION   NZ_CP096830
VERSION     NZ_CP096830.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN27593794
            Assembly: GCF_023272775.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4081)
  AUTHORS   Li,Y. and Li,R.
  TITLE     tet(X4)-positive E. coli isolated from slaughterhouses are highly
            relevant to human isolated
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4081)
  AUTHORS   Li,Y. and Li,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-APR-2022) College of Veterinary Medicine, Yangzhou
            University, 48 Wenhui East Road, YangZhou, JiangSu 225000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: QitanTech Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023272775.1-RS_2024_06_10
            Annotation Date                   :: 06/10/2024 04:29:25
            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)                     :: 5,188
            CDSs (total)                      :: 5,070
            Genes (coding)                    :: 4,880
            CDSs (with protein)               :: 4,880
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 190
            CDSs (without protein)            :: 190
            Pseudo Genes (ambiguous residues) :: 0 of 190
            Pseudo Genes (frameshifted)       :: 53 of 190
            Pseudo Genes (incomplete)         :: 129 of 190
            Pseudo Genes (internal stop)      :: 39 of 190
            Pseudo Genes (multiple problems)  :: 28 of 190
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP096830.1.
            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..4081
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PM4-5"
                     /isolation_source="cecum"
                     /db_xref="taxon:562"
                     /plasmid="pPM4-5-4k"
                     /geo_loc_name="China"
                     /lat_lon="32.15 N 119.01 E"
                     /collection_date="2020"
                     /collected_by="Yangzgou University"
     gene            complement(join(3802..4081,1..413))
                     /locus_tag="MYF75_RS00005"
                     /old_locus_tag="MYF75_00005"
     CDS             complement(join(3802..4081,1..413))
                     /locus_tag="MYF75_RS00005"
                     /old_locus_tag="MYF75_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001281403.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(945..1199)
                     /gene="mobC"
                     /locus_tag="MYF75_RS00010"
                     /old_locus_tag="MYF75_00010"
     CDS             complement(945..1199)
                     /gene="mobC"
                     /locus_tag="MYF75_RS00010"
                     /old_locus_tag="MYF75_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     gene            1387..3546
                     /gene="mobQ"
                     /locus_tag="MYF75_RS00015"
                     /old_locus_tag="MYF75_00015"
     CDS             1387..3546
                     /gene="mobQ"
                     /locus_tag="MYF75_RS00015"
                     /old_locus_tag="MYF75_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_227697615.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAECRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGKMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     Typing          complement(1207..1386)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.238"
                     /coverage="100.0"
                     /evalue="2.68e-81"
     Typing          1387..1745
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          complement(8..413)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="85.817"
                     /coverage="99.0"
                     /evalue="1.87e-118"
     Typing          complement(3803..4081)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.36e-144"
     Typing          1301..3543
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.198"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaacctgata tgttttttat aacaacgcgc gtgaattgcc ccttcagttg cgtcagataa
       61 ggcattaccg cgtcagaaaa ggttattcga gccttggcct cacctttagc gtactgtgcc
      121 cgatactgga tccagcggaa ctcctcacgc ttctcgtcat tcttgagaat gatcgacctg
      181 tcccataaac gatcgatcgc ttcctgtaac tgaacctcgg catttttccg ccccatgtca
      241 gggaatgaat caaaatattc cgcagcggta atggtcattg tcttttgcaa ttcagcatca
      301 gcaccagatt tcaatcgact gatacacagc aacagaaaac gttgttcctg tagggtcaac
      361 ttgtagctgg cctcaaccaa agcattcgac ttgtaggcaa tcaagtccga catacaaaga
      421 tcccgttcaa atgtggtgat gctttaatgt gccccacaaa taagaaatgt ggaatatttt
      481 tttttatatc ctcacatttc tgtgaataac accttaaatt cctccacctt taccttaaat
      541 tcctccacct aaacacctta aattcctcca cctttacctt aaattcctcc acatatacct
      601 ctataacata ttgattttat taatgaattt tgaccctaaa acaagtatta aaaacaagat
      661 cttaaaaaca agatctaaaa acttaacggc gagcctgtgg ataacttggg gcgctgaaaa
      721 caaaaaacca ataaaaacaa tgtgttgcaa gaaagcagaa ttgcaagttc cgaatactcc
      781 ccttccaacc ctgtggaaat ccagtattca tgcgggttca gcgcatatca cctaccgaaa
      841 aaccgtgcgt atgtgctcaa cctggcgacg gattcacttc cgcttcctcg cccactcgct
      901 cgctaacgct cggtcgctgg ggctgcggcg agcggacgat acaatcactg tcctggcagc
      961 gcctccagct cgttaatcag cggcagtatg cgcgtcacat cagcctgtcg tgtcacctct
     1021 gccttcagga actggagtaa ccaggcacgc aactgcacct cctccggctt tctgaccttt
     1081 gccagcaatg ctgcacccac aacaaccttc tgcgctgtgt ccaggctccg gctcttcgcc
     1141 ttcaggcgct gtaatctcgc ctcagcatca gcaatcttct gttcgagcgt tctgctcatg
     1201 atgtaactcc gtgcgcgatg aaaaatcgca ttttagcgcg tcactggtag tttaaaaact
     1261 gagctggcat aatgcacgac aaatcacaaa gtgcacaaag tgcgcactta tacaatctcc
     1321 actccgtttc gattgtgtgc gccctgcggg gctgaaagaa aactacaaaa aggcattacg
     1381 gcagaaatgg cgatttatca tctcagcatg aaaattatct ccagaagcag cggctacagc
     1441 gccgtagctt ccgctgccta tcgttccggt tcactgatgc ttgatgagcg taccggactg
     1501 actcacgact acacccgcaa aagcggtgtg gctgaagctg tgattctgac ccccgcgaca
     1561 gcccctgcct ggtgtacgaa ccgtgccgaa ctctggaatg ccgttgagaa ggccgaatgc
     1621 cggaagaact cacaacttgc gcgggaaatt gaactcgcta tcccccgtga actgccgcag
     1681 gatgccgcac gggaaaccgt tctcgccttt gtcagagaaa actttgtcag tcagggcatg
     1741 attgctgatg tggcgttcca tcacatggat aaaacaaatc cccatgcgca catcatgctg
     1801 accacgaggg ctgtcggacc tgctgggttc ggcggaaagg tcagggactg gaacgaccgg
     1861 acacatgccg agacgtggcg tgcatcatgg gctgaccatg caaacagagc actggcgaac
     1921 gccggttatc aggaagagat agaccatcgt tcatacgagc gacaggggct tgagaaaacg
     1981 cctggtattc acctcggaaa gtctgcctgt gcgatggaaa cacgcggtat cgaaacagaa
     2041 cgcggcgaac agaatcgtct gattaacagg cttaacctgg aaatacagat ttcccgcact
     2101 gaactcagga acagcgggct gacagagcct gcccgccgtg tggctgacct tctgaatatc
     2161 gtgcttcctg acaacgcaac ttcgtacaca ctacgtgaca tcatcgaagc gttgccgaag
     2221 gacagtaatg cggcatggaa actcaccagt aatgccatgt cgatgatggc agatatgcag
     2281 gcgacgcgca gacgctggga agagctgaac accgaacgaa aggaagcgat gagccatgct
     2341 gccagcctga aaaaatcatc gccgttttcg tccggttttt cccgtattcc cctgatgcaa
     2401 tgggcggcac cggaataccg tagcgaacag ggaaaaatcc agtcgctgag ccagcaaatg
     2461 gaaaaattgc gacagcatta ccggaaggtg gagaaacagg acattcccgc gagtcagacg
     2521 gcatttgaaa aacagtggca gcagtggggg gcatccggcc ttgcagctct cagagtccag
     2581 ttgcttaaac gtgaagagga attgcgccgg aaggagcagg aggatacaga acgtagtcgc
     2641 gcggagcgac gagcggaaca gctcaggaaa aatgacaatg ccgttatgga ttcaggggta
     2701 ctgagcgcag tcgttacggg gtatggcgag gcccccatgc ctggtaacgg gaaaatgacc
     2761 tgttaccttc tgcttcacaa ccggaacgga gaatacacgc tctgggggaa cgagctggag
     2821 aaataccgca ccagaatctt tgagcgtgtt gatttaatgc gtgacaggag tggttatatc
     2881 tgtgaccgaa gcgaaatcgg tcaacatcca ccactgcaac gtgtttattc ctctgcgacc
     2941 tttgagcaac ttctgacgca ggtttgccag acatggccgc aatatacccg caatctccgc
     3001 cagccgaaga catggccgga gtctttctgt cttggagaag accgccagcc agccatgcca
     3061 tcactggcag caaggaaggt ggattttacg cagggacgtc tgctaccgac gctgatgccg
     3121 gtaatgagtt ctgtcgaccg ggaaacccgc cagcttcagc ttttgctggt catgggcgtg
     3181 gatgactctc tgggcggtgt tgtccggctt aatggtacgc tgtatcccgc gtttgccgtt
     3241 ccctcagccg ataacagcca gctggtcatc agtgcactga ccgataaggg gttacggtat
     3301 gcagggtatg gtgttgccgt aaatcacgat gcagacagcc acatatcacc tgcgccggaa
     3361 cttatggagt ttcatctgaa aacccgtgag gcaccgcttt ttgctgccgt caacacacca
     3421 gaaaaacagc cggatcatct gttccgctct ctgggtttca atcgtacctg ggatgaatgg
     3481 cggcgcgagg aagatgcaag aacacacacc accgagagga gacatgatcg cggttggtca
     3541 cagtgaatgt gaacaatatt ttgttttgtt taacatcgtg ttatgttcgt cgatgttctt
     3601 ctatgttcat cgacagggat gaatgcaaga agcacacaca taatgcaagc atagttttgt
     3661 ttttccgccc ccaaaaattg ggggttcttt tttcgctgca ttagagcgct tttgacgcaa
     3721 tttttcactt caatagtacc ttcgcactac taacacaaaa aaaacgcagc agggagcgtt
     3781 ttaggtgcct taaaatcgat tttagatcgt catcttgatc tgtttgtctt ccttgaagcg
     3841 aaaatgcagg gctacaaccg tgcgcccctt tttgatcgtc tcaaccgtta cagccaggtc
     3901 gctttttttg ttcagttcgt caacacaggg ttttattagt attttattta agtctctgaa
     3961 ttgtttgtat ttattttcaa tccctaacat tgaacgaaag tcattaagag caataattct
     4021 ctctcccgta ctgcggaatt gctggaggaa ctcgtatatt cttatactgt aactacttga
     4081 t
//
