LOCUS       NZ_CP032072             3893 bp    DNA     circular CON 19-JUN-2023
DEFINITION  Escherichia coli strain E166 plasmid p.E166-P6, complete sequence.
ACCESSION   NZ_CP032072
VERSION     NZ_CP032072.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN09939624
            Assembly: GCF_018141225.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3893)
  AUTHORS   Zhuge,X.
  TITLE     Molecular Epidemiology and Zoonotic Risk of Avian-origin
            mcr-1-positive Extraintestinal Pathogenic Escherichia coli in China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3893)
  AUTHORS   Zhuge,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-AUG-2018) College of Veterinary Medicine, Nanjing
            Agricultural University, No.1, Weigang Road, Xuanwu District,
            Nanjing, Jiangsu 210095, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: ABySS v. 2.0.2
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 606.0x
            Sequencing Technology             :: Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/19/2023 03:03:17
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,177
            CDSs (total)                      :: 5,061
            Genes (coding)                    :: 4,819
            CDSs (with protein)               :: 4,819
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 242
            CDSs (without protein)            :: 242
            Pseudo Genes (ambiguous residues) :: 0 of 242
            Pseudo Genes (frameshifted)       :: 93 of 242
            Pseudo Genes (incomplete)         :: 166 of 242
            Pseudo Genes (internal stop)      :: 53 of 242
            Pseudo Genes (multiple problems)  :: 62 of 242
            Pseudo Genes (short protein)      :: 4 of 242
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP032072.1.
            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..3893
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="E166"
                     /host="Avian"
                     /db_xref="taxon:562"
                     /plasmid="p.E166-P6"
                     /geo_loc_name="China"
                     /collection_date="2014"
     gene            complement(300..746)
                     /locus_tag="D2J89_RS25580"
                     /old_locus_tag="D2J89_27725"
     CDS             complement(300..746)
                     /locus_tag="D2J89_RS25580"
                     /old_locus_tag="D2J89_27725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_104920596.1"
                     /translation="MTNREEWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAASLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPRNHPKWQEWERRGKELLTKDSA"
                     /name="conjugal transfer protein TraD"
     gene            918..2468
                     /locus_tag="D2J89_RS25585"
                     /old_locus_tag="D2J89_27730"
     CDS             918..2468
                     /locus_tag="D2J89_RS25585"
                     /old_locus_tag="D2J89_27730"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001624483.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001624483.1"
                     /translation="MASYHCTVKAGAKGSALKHADYISRSGEYKSYKSREDLEFSSSGN
                     MPSWAKKNPAELWKAADEFERKNGTAYREIEIALPRELTREQRIELVEDFVQKELGDRH
                     AYQYAIHNPPGAIDGKEQPHAHIMFCERINDGIERDPQQFFKRANSKSPERGGAKKASI
                     PQTAGERKAALVALRSRWADVQNEHLARYGHESRVDHRSLKEQGINRTPEVHLGPVQAA
                     SLNGEQIVAIQERRNAERELKTARDAANAIQQEQEQKQKIKAVEPVRSARSPELLLQYR
                     KVMKTVIQGEARLARLGDANPNALKEHKLLQNAKAKKDSLSEWSRRIYEGARYLDKLGR
                     NVVSAQRELRELQEQRNALNGIRGLFRGADKREIDARILEQKSVLETAEHERNEFRNKL
                     QQAESEWDKENAAFKRTEGYKYVGDLDRYREREILAAASLENTRQKVAEEVSVARSQML
                     SLEPELSISGDEKAQMRHELLAEMAQERQQQEEKALRIQRSWAREASRSNERDQDMER"
                     /name="MobA/MobL family protein"
     gene            2923..3858
                     /locus_tag="D2J89_RS25590"
                     /old_locus_tag="D2J89_27735"
     CDS             2923..3858
                     /locus_tag="D2J89_RS25590"
                     /old_locus_tag="D2J89_27735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011666805.1"
                     /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_104920595.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDLNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAIERALCEKLGADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGRSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGIAKGEAYEDKRFMAL
                     CMLENGYSQKAIAAMLDVSTRTVRNWAMHK"
                     /name="replication initiation protein"
     Typing          2924..3843
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.137"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          919..2465
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.629"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taattgttaa tacagataac attatgatta ataaaatata ttgcattata ttgtgctttt
       61 tttgtgcggt gagatgttgt gtttttgtta aaaaagcgga aaatagccta tatcagataa
      121 cagcgcctct tcggcgtttt tttgagcagc gggctttccg gcggttttct cctttcagcc
      181 cagcaatggt gctgcttacc gcatgattga ggtggtcgtg ctcgccgcag tctcatgacc
      241 gagcgtagcg agcgaatgag cgaggaagca ccagggaacc ggaacgtgaa cggaggctct
      301 tacgcactgt ctttggttag tagctccttt ccgcgtcttt cccattcctg ccattttgga
      361 tggttgcgcg gtagctctgc gattcctgcg agtgcgccta ccagttcggc agcactaaac
      421 tttggttttc cggttttgct gtccaccagt cctgccacaa tcatgaggct tgcggccttg
      481 tagagttcat gatcccgcgc ctttcgttcc gcccttgcgg ctgccttccg ttctgccgct
      541 atgattgccg ttaccctggc ttttgctgcg gctgctttct ctgcggtttt ttctgcccgt
      601 atcagtgcgg acaacgtttt ttcatccgtc gttgttcggt tttttttctc tgccagtaac
      661 acaagtaatc tctgctgctc tgacggtgat ttcagtccgt tgatgtaggc aatttttgca
      721 cttaaccact cttcacgatt tgtcattctt acctctgcac ttttgccgtt aatgtgagtt
      781 gttattgtgc ataatatcac cttgtctgcc tgcgtgtgag accgtaaaat catccctgat
      841 taattcaggg atgcgcactt agtagtttct ctccttcgtc gagaaactgt gcgctcctgc
      901 ggagggctaa aaggcagatg gcaagctacc attgcaccgt caaagctgga gcaaaaggca
      961 gtgccttaaa acatgctgat tacatttcca gatccggcga atataagagc tacaaatcgc
     1021 gggaggatct ggaattttcg tcatcaggta acatgccatc atgggcgaag aaaaatcccg
     1081 cagagctatg gaaagccgca gatgaatttg aacgaaaaaa cgggactgca taccgtgaaa
     1141 ttgagatcgc gttaccgcgt gaactgacac gcgaacaacg gatagaactt gttgaagatt
     1201 tcgtgcaaaa ggaacttggc gatcgccatg cctaccagta cgcgatccac aatccgccag
     1261 gtgcaatcga cggaaaggaa cagccacacg cgcatatcat gttttgcgag cggattaatg
     1321 atggtattga acgcgatccg cagcaatttt ttaaacgtgc caacagcaaa tcaccagaac
     1381 ggggaggcgc aaaaaaagcg agtattcccc agacagccgg agagcgaaaa gccgcccttg
     1441 ttgcgctgcg ttcccgctgg gcagatgtgc agaatgagca tcttgctcga tacggtcacg
     1501 agtcgcgcgt agatcatcgt tctctgaaag aacagggtat caatcgcacg ccggaagttc
     1561 atcttggccc cgttcaggcc gccagtctca atggtgagca gattgttgca atccaggaac
     1621 ggaggaatgc cgagcgggaa ctcaagaccg ccagagatgc cgcaaatgcc attcagcagg
     1681 aacaggagca aaagcaaaaa atcaaggcag ttgagcctgt tcgttcagcc cgttcaccgg
     1741 agttattgct tcagtaccgc aaggttatga aaacggtcat tcagggagaa gcaaggcttg
     1801 ctcgtttagg ggatgccaat cccaatgcgc tcaaagaaca taagctgctt cagaatgcga
     1861 aagcaaaaaa agactctctt tccgaatgga gcaggcgaat atatgaaggg gcacggtatt
     1921 tagacaaact ggggcgtaat gtcgtttccg cacaaaggga gctgcgggag ctacaggaac
     1981 aacgcaatgc tttgaatggg attcgtggcc tgtttcgggg ggctgacaaa agggagattg
     2041 atgcgcgtat tctggagcaa aaaagtgtgc tggaaaccgc tgaacatgaa aggaatgaat
     2101 tcaggaacaa gctacagcaa gccgaatccg agtgggacaa agaaaacgct gcttttaagc
     2161 gtaccgaggg atataagtac gttggggatc tggacaggta cagagaacgt gagattctgg
     2221 ccgcggcatc tttagagaat accaggcaaa aggttgctga agaagtatcc gttgcccgta
     2281 gccagatgtt atctctggag cctgaactca gtatatctgg agatgaaaaa gctcaaatgc
     2341 gacatgagtt actggcagaa atggcgcagg aacggcagca acaggaggaa aaggcactgc
     2401 gtatacagcg atcctgggcc agggaggcat cacgtagtaa cgaacgtgat caagatatgg
     2461 agcgttgaaa atgtagcaat atcgggactg cgccccgaac cccgccaacg tttcacggaa
     2521 cgcgaaaaaa ttccgcgtcc cgttcaccgt tttctgatga gaaagtttgc tgttttgacc
     2581 cgttcgccct tctgaacgct cgaaacagat cgcgcatcgc tttcgtgcat agttatgcaa
     2641 cgctctgaaa acgattctga cgcgtttttc tggtttggcc tggggttttt ctgtcttttt
     2701 gcgttttttg cgtcaggaag cgactgaggg cgttttacgg ggtacgtaca acgggagtta
     2761 tggtaaatgg atcggttttg cgggaagact cgacaggttt tgtcgttggg ggtagtgtaa
     2821 gcgactgaaa aacaaacgcc cctgaaattc gtgtctctcc gccaagattg tcacgaaaat
     2881 acaggggcgt gtgggtcgta acacacggag gaatcctaac acatgagcgc cgcgcttcaa
     2941 tacttcgaag aaaatttacc tcaccgtccc tatcacacgg atgatctcgc tttcggcctt
     3001 cgcatctccg gcaaagggcg tgcgcttctt gcgcggtaca tccagcagaa ccagccacat
     3061 gcgcagttct ggctggtttt tgacgttgac cgcgagggag ctgctattga ctggagcgac
     3121 ctgaacgctc ccgcaccgaa catcaccgta aaaaatcctg tgaacggtca tgcccacctg
     3181 ctctacgcac tcaatatcgc cgtgagaact gcgcctgatg cgtcggttaa ggcgctgaaa
     3241 tacgccgccg cgattgaacg tgcgttgtgt gaaaaactgg gcgcagatgt gaactacagc
     3301 ggactgattt gcaaaaatcc gttccacctg gaatggcagg tgatggagtg gcgcgaggaa
     3361 gcctataccc tcgatgaact ggctgattat ctcgatttga gcgcctcaga gcgtcgtagc
     3421 atcgataaac attacgggat ggggcgaaac tgccacctgt tcgaaatgac gcgcaaatgg
     3481 gcttacaggg cgattcgtca gggctggcca gcattctcac agtggcttga tgctgtgatt
     3541 cagcgtgtcg aaatgtacaa cgcatcgctt cccgttccgc tttctccgcc ggaatgtcgg
     3601 gctattggca ggagcattgc gaaatacacg cacaggaact tcacgccgga aactttcgca
     3661 cagtatgtgg ctgatacgca cacacctgaa atacaggccg ctcgaggccg gaaaggtggc
     3721 attgctaaag gcgaagccta cgaggacaaa cgtttcatgg cgctatgtat gctggagaat
     3781 ggatattcac agaaagctat tgcggcgatg ctggatgttt caactcgaac cgttcgaaat
     3841 tgggcaatgc ataaatagcc tgtatcagat aacagtgcct ttattgtgtt ata
//
