LOCUS       NZ_AP025208             2442 bp    DNA     circular CON 18-DEC-2023
DEFINITION  Escherichia coli strain 2017.04.03CC plasmid p20170403CC-3, complete
            sequence.
ACCESSION   NZ_AP025208
VERSION     NZ_AP025208.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00407180
            Assembly: GCF_020886375.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Yamamoto,Y., Higashi,A., Ikawa,K., Yamaguchi,T., Kawahara,R.,
            Nguyen,T.N., Khong,D.T. and Tran,H.T.
  TITLE     Horizontal transfer of mcr-1 marked with a single nucleotide
            mutation between clinical isolates from community residents
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2442)
  AUTHORS   Yamaguchi,T. and Kawahara,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-OCT-2021) Contact:Takahiro Yamaguchi Osaka Institute
            of Public Health, Division of Microbiology; Higasinariku nakamichi
            1-3-69, Osaka, Osaka 537-0025, Japan URL :https://www.iph.osaka.jp/
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Coverage                   :: 98x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/18/2023 04:14:33
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,571
            CDSs (total)                      :: 4,452
            Genes (coding)                    :: 4,241
            CDSs (with protein)               :: 4,241
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 211
            CDSs (without protein)            :: 211
            Pseudo Genes (ambiguous residues) :: 0 of 211
            Pseudo Genes (frameshifted)       :: 58 of 211
            Pseudo Genes (incomplete)         :: 146 of 211
            Pseudo Genes (internal stop)      :: 29 of 211
            Pseudo Genes (multiple problems)  :: 23 of 211
            Pseudo Genes (short protein)      :: 5 of 211
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP025208.1.
            Annotated by DFAST https://dfast.ddbj.nig.ac.jp/
            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..2442
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017.04.03CC"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p20170403CC-3"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017-11"
     gene            463..945
                     /locus_tag="LPH27_RS22710"
                     /old_locus_tag="VEGS17_44060"
     CDS             463..945
                     /locus_tag="LPH27_RS22710"
                     /old_locus_tag="VEGS17_44060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001565850.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_223375251.1"
                     /translation="MNTKKISRLERHTYMDENGEVKQDSKIETFSIPAEPPYVKLYIAD
                     IAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKNIIAALVD
                     KQIFFRAGRGELEANPFLFARGDWPSIYERRKKIELKISYDTNGRTVQTKVMDDEC"
                     /name="hypothetical protein"
     gene            932..1162
                     /locus_tag="LPH27_RS22715"
                     /old_locus_tag="VEGS17_44070"
     CDS             932..1162
                     /locus_tag="LPH27_RS22715"
                     /old_locus_tag="VEGS17_44070"
                     /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_124788667.1"
                     /translation="MMNAEDKLFKNVDRLMLHDSLKKNEVLTVWERTFLSSVYSIYRRT
                     SGNKYSTKGLSPKQKNAAFSILKKHNYHLND"
                     /name="hypothetical protein"
     gene            complement(1232..2200)
                     /gene="mobV"
                     /locus_tag="LPH27_RS22720"
                     /old_locus_tag="VEGS17_44080"
     CDS             complement(1232..2200)
                     /gene="mobV"
                     /locus_tag="LPH27_RS22720"
                     /old_locus_tag="VEGS17_44080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_000024818.1"
                     /translation="MANYAIMRCKKLTGMGSVASALQHCYRERETPNANAERTPENYCS
                     VSKSTDQAMGRVRELLPEKRRKDAVLAVEYVMTASPEWWKEATPRQQAEFFARSEQWLE
                     KKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGGRSKMREDQSTYAESVK
                     KLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPRVLRKGIFTKDVEDQAA
                     IAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKRLQSVTEPFKGLSREQM
                     TEILMMAQRFKQQNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="mobV"
     Typing          complement(1236..2209)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.077"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 cgctacgctc gcccttgacg aaatcaggca atgaaatcgt ctttgaaaga gcaggaaccg
       61 ctcgccgcag ctttggctga ggcgtaccgc aggagcaacg cgacgaggaa cgaacagcca
      121 aagcgaggaa gcggaatttc cactccccgt acatagaaat gcgtacactc cttgctaaaa
      181 aaaggcagtt tttcagtgtc taaaaatgcc gtttttcagc ccttattttc ccccttaata
      241 tatagatata gatatgggaa cccgcttgta ccaagggcta gagcgaagaa tcgtactcac
      301 ctcaagtacc aatcgtactc acctcaagta ctaatcgtac tcacctcaag gactaatcgt
      361 actcacctca agtactaatc gtacttgata caaaggactt gactgtatgt ctctttagta
      421 cttaaatgcg agtactaaat catggcgaaa cgtggggctg gagtgaatac gaaaaagatt
      481 tctaggcttg aacggcatac atacatggat gaaaacggtg aggtaaaaca agactctaag
      541 atcgagacct tttccatccc agccgaacct ccctacgtca agctatacat tgcagacatt
      601 gcgatgattc atggtttatc aaaatctcaa aatgatgtgc ttttacaatt ggcaatgctg
      661 attggatggg atgggtttgt gtctgtatca aaaactagat ttgaaaaaac catacagccc
      721 agggttcata ttgaatatca gacctttaaa aacataattg cggctcttgt agataaacaa
      781 atattcttcc gggcagggcg tggggaactt gaagctaacc cctttctttt tgcacgggga
      841 gactggccat caatttacga aagaagaaag aaaattgagt taaagatcag ttatgacacc
      901 aatggaagaa cggtgcagac gaaggtaatg gatgatgaat gctgaagata aactttttaa
      961 aaatgtagac aggctaatgc tgcatgattc actaaaaaag aatgaggttc tgactgtttg
     1021 ggagcgtact tttttaagca gtgtttacag catatatcgt agaactagcg gtaataaata
     1081 ctcaactaag ggtttgtcac caaagcagaa aaacgcagct ttttctattt taaaaaaaca
     1141 taattaccat ctgaatgatt aattttttcg tggtgaatgc cgcaaatgac gtcactttgc
     1201 ggcgttagcc ctatcctgca tcgcatcaaa actaacgctc cataccaccc atgccacgcg
     1261 atcgcgtctg tcgctgtttt tcacgttcaa tacgctgctg tttttccttt tcctggtttt
     1321 gctgcttaaa ccgctgagcc atcatcagga tttcggtcat ctgctctctg gaaagcccct
     1381 taaaaggctc tgtgacgctc tgtaggcgtt tctgctgcgc atccatagtc ttctgtagct
     1441 cacgcgctct ttttgcgttc tgggcgctct gagaggccat agcgatggtt cctgcaaagc
     1501 catcgttcac tgcgtggctt agacgtttgg ctatggctgc ctgatcttcc acgtctttgg
     1561 tgaaaatgcc cttccgcaat acacgcggct ccagcgcctc cggcgagatc gatacctggc
     1621 tacgggtgcc acggtttatc gattcgtagt agtgctgaac tgtctgatgc gtggcgcggc
     1681 ttccctcgat gccgcgctca agacccagtt tttttactga ttcagcgtag gtgctctgat
     1741 cttcacgcat ctttgaccgc ccgccaataa actctttcgc ggacagccgt ccatcctgcg
     1801 tcaatggcac cacgaacgca gacaggtgcg gggtggcctc gtcccggtga accaccgccg
     1861 ccacaacacg atccttcccg tatttcttct ccagccattg ctcagagcgg gcgaaaaact
     1921 ccgcctgctg ccgtggtgtg gcctctttcc accactcagg gcttgctgtc ataacgtatt
     1981 caacggccag taccgcatct ttacggcgtt tttccggcag cagctcccgc acacgcccca
     2041 ttgcctgatc cgttgatttg gacacagagc agtagttttc tggtgtccgt tcagcgttag
     2101 cgttcggcgt ctcacgctct cggtagcagt gctgcaacgc gctggccacg cttcccattc
     2161 ccgtcagctt tttgcagcgc attatcgcgt agttcgccat gttcccccct gattccggca
     2221 ttcattcagc caggcggggg agcgcattgc gatacctccg gcgggccact atcaagatga
     2281 tagtgtactc actagacttt gctacgcaaa atcgttcggg cagcaagctg ccagaaggtc
     2341 aaaatcaacg gcggtctggc aggtggaagg cgtcgcttcg cgccaccccc caccactgcc
     2401 aagcctgttt tatccggagt gtcgtcaagg gtaaatggca ct
//
