LOCUS       NZ_CP034743             5131 bp    DNA     circular CON 18-JUN-2024
DEFINITION  Escherichia coli strain L65 plasmid pL65-7, complete sequence.
ACCESSION   NZ_CP034743
VERSION     NZ_CP034743.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10623993
            Assembly: GCF_003999795.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5131)
  AUTHORS   Liu,Z., Li,Y., Li,R., Xiao,X. and Wang,Z.
  TITLE     Emergence of NDM-5 prouducing Escherichia coli from a goose farm in
            Jiangsu, China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5131)
  AUTHORS   Liu,Z., Li,Y., Li,R., Xiao,X. and Wang,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-DEC-2018) Veterinary, Yangzhou University, 88
            University South Road, Yangzhou, Jiangsu 225009, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. 4.4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003999795.1-RS_2024_06_18
            Annotation Date                   :: 06/18/2024 04:15:22
            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)                     :: 4,857
            CDSs (total)                      :: 4,739
            Genes (coding)                    :: 4,575
            CDSs (with protein)               :: 4,575
            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)              :: 164
            CDSs (without protein)            :: 164
            Pseudo Genes (ambiguous residues) :: 0 of 164
            Pseudo Genes (frameshifted)       :: 73 of 164
            Pseudo Genes (incomplete)         :: 88 of 164
            Pseudo Genes (internal stop)      :: 39 of 164
            Pseudo Genes (multiple problems)  :: 30 of 164
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP034743.1.
            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..5131
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="L65"
                     /db_xref="taxon:562"
                     /plasmid="pL65-7"
                     /geo_loc_name="China"
                     /lat_lon="32.40 N 119.40 E"
                     /collection_date="2018-05-28"
                     /collected_by="Ziyi Liu"
     gene            join(4756..5131,1..26)
                     /locus_tag="EM854_RS24140"
                     /old_locus_tag="EM854_24140"
     CDS             join(4756..5131,1..26)
                     /locus_tag="EM854_RS24140"
                     /old_locus_tag="EM854_24140"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_250187450.1"
                     /translation="MSDQKNNLDLQKQTLESKWGKEALSMGWSAIPTSLFFLQGALNMT
                     PTTFNVLLHLIIHWWKPYDWPHPSQESIAVRMGVSSRTVQRSLQELENYGLLTKIRTSK
                     DNPKYKGRNIYDMSLLVKSLNIRQTLMPN"
                     /name="helix-turn-helix domain-containing protein"
     gene            206..472
                     /locus_tag="EM854_RS24145"
                     /old_locus_tag="EM854_24145"
     CDS             206..472
                     /locus_tag="EM854_RS24145"
                     /old_locus_tag="EM854_24145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891192.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein L"
                     /protein_id="WP_127528492.1"
                     /translation="MAVYTSETKKIFLDSVSHDKTWWTSRYNPADDVPVSGIYRCTVCG
                     KEITSNKDDPFPPQNHHQHSQSQAIKWQLIVRTDTQGNGCGSK"
                     /name="protein L"
     gene            complement(631..1323)
                     /locus_tag="EM854_RS24150"
                     /old_locus_tag="EM854_24150"
     CDS             complement(631..1323)
                     /locus_tag="EM854_RS24150"
                     /old_locus_tag="EM854_24150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000550475.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3800 domain-containing protein"
                     /protein_id="WP_072644306.1"
                     /translation="MHLLYVDESGTPSDPTLNHFVLSGISVFEKQTHWIEQEMNAIAAR
                     FNADDPYERELHGSPMRGGRDGWKNFSFNDRKQAIKDCLALLTQKHRDIRIFACVVPKG
                     ALDGKDVITESFYQISSRFDMYLSRLHHQGATSRGVAIFDKSSTEKSIQSLARTFKDTG
                     YEYGKLRNFSEVPLFLDSKASRLIQLADLVSYSIFRKFEFNDDEFYKIIENRFDYHNGK
                     VHGLYVAH"
                     /name="DUF3800 domain-containing protein"
     gene            2551..2745
                     /locus_tag="EM854_RS24155"
                     /old_locus_tag="EM854_24155"
     CDS             2551..2745
                     /locus_tag="EM854_RS24155"
                     /old_locus_tag="EM854_24155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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_072644309.1"
                     /translation="MNKQQQIALNMARFIKSQSLTLLEKLDALDADEQATMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3735..4409)
                     /locus_tag="EM854_RS24160"
                     /old_locus_tag="EM854_24160"
     CDS             complement(3735..4409)
                     /locus_tag="EM854_RS24160"
                     /old_locus_tag="EM854_24160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001259273.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="WP_072644308.1"
                     /translation="MRTIVYVDGFNFYHGLVKRSGYKWLDLYKLFEEQLLPIRSRESQL
                     IQVKFFTAEIKAKFASRGELAHQAQQAYHRALVQIYGDNLQIIKGYYSERQECAMTFNE
                     GHPPSKTDRTTVWKLEEKQTDVRMALEMYRDAIRGEAEQLVLCTNDSDMIPPIEMIKAD
                     RPELKIGIVVPREQDTSRVISSLASLGDWSLPYVSYEALRLALLPDKVPTRRKPILKPN
                     HW"
                     /name="NYN domain-containing protein"
     Typing          2446..2530
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.393"
                     /coverage="87.0"
                     /evalue="5.15e-16"
     Typing          complement(2822..2903)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.857"
                     /coverage="98.0"
                     /evalue="1.43e-25"
     Typing          3204..3727
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.604"
                     /coverage="99.0"
                     /evalue="7.85e-161"
ORIGIN
        1 tacgccagac cttaatgcca aactgaacga aaagtaacca taaaataatt ttttaaaaaa
       61 atcagaccat tacagcttat atttaccata gcatctctat ttttagcgtt ttttcaatca
      121 tcgccagatg attgaaaaaa acgctaaaac caaacttata aaaggatccc ctccgcccct
      181 atacattttt ggaaaggaaa ggcaaatggc tgtatacacc tctgagacta aaaaaatttt
      241 tttagacagt gtttctcacg ataaaacttg gtggacatca cgatataacc cagctgacga
      301 tgtaccggta tcagggatct atcgttgtac tgtttgcgga aaagagataa ctagcaataa
      361 agatgacccg tttccgccgc aaaaccatca tcaacacagc caaagtcagg caatcaagtg
      421 gcaattaatt gtcagaacag atacgcaagg aaatggttgt ggttctaaat aactcaaaag
      481 cccttagggg cttttttgta cctagcggtc agacggatta aacataacat ccgttgtacg
      541 ctacgcatga aaaagcccgc gtagcgggct tcgcgtcgat ggtcacaagg aactcttact
      601 tatagatagt gcgtattcac aactattcca ttagtgggct acgtaaagcc cgtgaacttt
      661 accattatgg tagtcaaagc gattctctat gattttgtag aactcatcat cattgaactc
      721 aaacttcctg aaaattgagt acgacacaag atcagcaagc tgaatcagcc ttgacgcttt
      781 ggaatccaaa aataaaggta cttcagagaa gttgcgaagt tttccatact catatccagt
      841 atctttaaac gtacgggcaa gagattgaat acttttttct gtcgacgatt tatcaaaaat
      901 ggccacccct cgagacgttg ctccttggtg atgtaagcga cttaaataca tgtcgaaacg
      961 agacgatatt tgataaaaag actctgttat tacatccttc ccatctaagg ctcccttggg
     1021 tacaacacat gcaaatatgc gaatatcccg atgcttttga gtaaggagtg ctaagcaatc
     1081 tttgatcgct tgttttctgt cattgaaaga aaaatttttc cagccatctc gtccacctct
     1141 catcggtgaa ccatgcaatt ctctttcata cgggtcatca gcattaaatc gagccgcaat
     1201 tgcattcatc tcttgctcta tccagtgagt ttgcttttca aatactgata taccagaaag
     1261 gacaaaatga ttaagagtag ggtctgatgg tgtaccagac tcatcaacgt acaagagatg
     1321 catctaagac tccttaaacg aaaaggccgc gcaaatgcgc ggccttttta tgaattaggc
     1381 aaagccagtg cgataaacat cgcatacacc gctatgggca gcgaactgac tcaatatcaa
     1441 tgataacagg caagtgcata tttacccaaa taatttatac acacaccata gccatgagca
     1501 atcaaataac ataaattcaa tcagatagtt tcttcaccgt cattctgatt taccataaca
     1561 tctgttgcgt gcaccatctc agacgccctc agggcatttc tgcgccctcc agcctatttc
     1621 cggcatcttt ccctgtccat atcgtgaaaa aacgcgcctg atgatttctg cgcatctgca
     1681 tggctatgca cgaacatgcc tggccggaat tttagcggct aaaatcctgc gaactgctca
     1741 aaaggctcgc tgaaccccat cgataacggt gaacgggtgc acagtttact gtgcggtcgt
     1801 gaggcgttga gcaacgagct tttgcgaggc ggtagggttc tgagagccag ctgcaggctc
     1861 aggagaaaaa cattctgttt tcggggcaga taccgcaaat gacgtcattt tgcggcgtct
     1921 gccctatcct gcatcgcaac gtctaaagga tgtgagtaca aacgccagca ctttgcgaat
     1981 cctgccctcg atctgaacaa aagcaaaatt tcgtacgtac gaaattcagg gtatcaggct
     2041 gcgcctgatg aaatgttttt ggtgccggcg gtactccaaa aacacatctt gtccgacagt
     2101 tttgtggtgc cggcgaagcg gcggtggcca caaaacattt cctgtcccca tcgattcatt
     2161 cgagaaacat aagaggcgaa gaaggggtca gtttggagat cggaaatttt tgtacgttaa
     2221 gcgcattatt taaccaatct tggttcgtaa ggggttgatt ttgcgtcagt ggctatcgct
     2281 tttaagttgt cgctcttgca gtatcgcatt taggttatcc gattaaggtc aaacctctga
     2341 aaatgccgta tagcgcggga gtacacccta ttgctatagg taagtctgtt caaaaaacag
     2401 gcttaccgta caataattct ctatatccaa actgacccct aaagaaacag gacaggatgt
     2461 gcaattgtaa taccgtcgcc cgcaacgtct tacaattacc acctggtcag ggtccacccg
     2521 acacccggta ctgacggaga acaacggaag gtgaacaaac agcaacaaat tgcgctgaat
     2581 atggcgcgat ttatcaaaag ccagagcctg acactacttg aaaaactgga tgctctggat
     2641 gccgacgaac aggcgaccat gtgcgaacga ctgcacgaac tcgcggaaga gctccagaac
     2701 agcatccagg ttcgctttga gaccgaaagt gaaacaggga cataacgaag ctgacggagg
     2761 cgctcacggc ttgtccgcga gcgttttcgg cagcagacaa gcccgtcagg gcgcgtcagt
     2821 ggggttcggg gcgaagccct gaaccagtca cgtagagata gcggagtgta tacgggctta
     2881 atcatgcagc atcagtgcgg attgtatgaa aagtttgcca tatccggagt gaaatgccgc
     2941 acagatgcgt aaggagaata tgcctgttca ggcgctcttc cgcttcctcg ctcactgact
     3001 cgctacgctc ggtcgttcgg ctgcggcgag cggtgtctgc tcactcaaag atggtaatac
     3061 agttatccac agaatccgag gataacgccg gaaagaacat gtgagcaaca agacgaaacc
     3121 cggaaaaagg cagcgccggt ggcgtttttc cataggcttc gcccccctga cgagcatcac
     3181 aaaaatcgac gctcaagtca gaggtggcga aacccgacag gacttaaaga taccaggcgt
     3241 ttccccctgg tggctccctc gtgcgctctc ctgttcctgc cattcggttt accggtgtca
     3301 ctccgctgtt atggccgcgt ttgtctcatt ccacgcctga cactcagttc cgggtaggca
     3361 gttcgctcca agctggactg tatgcacgaa ccccccgttc agtccgactg ctgcgccttt
     3421 tccggtaact atcgtcttga gtccaatccg gaaagacacg acttatcgcc actggcagca
     3481 gccattggta acaggattca cggagcagag tagtagaagt gcttctacag agttcttgaa
     3541 gtgatggcct gactgcggct acactggaag gacagttttg gtatctgcgc tccgtgaaag
     3601 ccagttacct tcggaaaaaa gagttggtag ctcttgattc cggcaaacaa accaccgttg
     3661 gtagcggtgg tttttttgtt tgcaggacat gagattacga cgagagtaaa aggatcacaa
     3721 gaagatccgg ctgtttacca gtgatttggc ttcagtattg gctttcgcct agtggggact
     3781 ttatctggca ataaagctaa tcttaaggct tcataggata catatggcaa gctccaatcc
     3841 cctaaactag ccagactact aatcactcga ctagtatctt gttcccttgg cactacaatt
     3901 cctattttta actcaggtcg atcggctttt atcatttcta ttggcggtat catatctgag
     3961 tcgttagtac agagaaccaa ttgttctgcc tcaccacgga tcgcatcgcg atacatttct
     4021 aaagccattc taacgtcggt ctgcttttct tctaacttcc agaccgttgt tctatccgtt
     4081 tttgatggcg gatgcccctc attaaaggtc attgcacatt cctgacgctc tgagtaataa
     4141 cctttgatta tctgtaggtt atcgccatag atctgtacta atgctcgatg gtaggcttgc
     4201 tgagcctggt gcgccaattc accccgagaa gcaaactttg ctttgatctc agcagtaaag
     4261 aacttcacct gaatcaactg tgactctctt gatcttatcg gaagtagttg ttcttcaaag
     4321 agtttataga gatctaacca cttatatccc gaacgcttaa ccaatccgtg ataaaaatta
     4381 aacccatcta cgtaaactat tgttctcatt ttatttcgcg cataaaaacc gcctctaaag
     4441 gcggttttaa caacaaaaac taacgttagc aaacagttta agttgtagtt cctcagggtt
     4501 aaaactaacc gagagggcgg tttcaagctc ctgaaggaag acgcgtaact taatcgctgc
     4561 ccacctaaag ggaggtttag agcctcaaag ggagctgcgt aacttaatcg cgctaccaag
     4621 aggtgagtgt agattaagta tagttaaata taatgatatt ataagcgcga tggtgtcgta
     4681 ctaattatat gaattaattt accaacctgc taagctgaag tcttctatga agacttcagc
     4741 ttagcaggtt ggtatatgtc agatcaaaaa aataatttag accttcaaaa acagacactt
     4801 gaatctaaat gggggaagga ggcgttaagc atgggatggt cagccattcc tacatccctt
     4861 ttcttcctgc agggcgcact caatatgacc cccacaacat tcaatgtgct acttcatcta
     4921 atcatccact ggtggaaacc ctatgattgg ccacatccat ctcaagagag catcgcggtt
     4981 agaatgggag tttcatcaag aacagttcaa cgctcactcc aagaacttga aaattacgga
     5041 ttgcttacaa aaattcgtac aagcaaggac aaccctaagt acaaagggcg aaacatttac
     5101 gatatgtctc ttttagttaa gtcactaaac a
//
